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
OR13C5	138799	hgsc.bcm.edu	37	9	107361179	107361182	+	Frame_Shift_Del	DEL	GTTA	GTTA	-	rs202235686		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GTTA	GTTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	467	34	417	0	0.0728051	0	.	.	weak	.	OR13C5	60	.	NM_001004482	exon1	c.514_517del	p.172_173del	.	.	PASS	Atlas-Indel
NCOA3	8202	hgsc.bcm.edu	37	20	46279815	46279823	+	In_Frame_Del	DEL	GCAGCAGCA	GCAGCAGCA	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GCAGCAGCA	GCAGCAGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	25	107	.	0.219	.	.	.	none	.	NCOA3	156	.	NM_181659	exon20	c.3740_3748del	p.1247_1250del	.	.	PASS	Pindel,Atlas-Indel
SRA1	10011	hgsc.bcm.edu	37	5	139931628	139931629	+	Frame_Shift_Ins	INS	-	-	GT	rs3085220	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	38	200	0	0.195876	0	.	.	strong	SRA1,NS,carcinoma,0,2	SRA1	24	2	NM_001035235	exon3	c.329_330insAC	p.V110fs	.	.	PASS	Atlas-Indel
USP40	55230	hgsc.bcm.edu	37	2	234429739	234429740	+	In_Frame_Ins	INS	-	-	TTC	rs141501074	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	25	60	.	0.379	.	-|0.837;TTC|0.163	0.163	strong	.	USP40	174	.	NM_018218	exon16	c.2256_2257insGAA	p.K752delinsKK	.	.	PASS	Pindel,Atlas-Indel
HLA-A	3105	hgsc.bcm.edu	37	6	29912395	29912396	+	Splice_Site	INS	-	-	GG	rs376806238	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	387	41	307	0	0.105943	0	.	.	weak	.	HLA-A	89	.	NM_001242758	exon5	c.1012+2->GG	.	.	.	PASS	Atlas-Indel
USP36	57602	hgsc.bcm.edu	37	17	76798549	76798554	+	In_Frame_Del	DEL	TTTTTC	TTTTTC	-	rs71964596	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TTTTTC	TTTTTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	21	65	.	0.309	.	TTTTTC|0.636;-|0.364	0.364	strong	.	USP36	243	.	NM_025090	exon17	c.2875_2880del	p.959_960del	.	.	PASS	Pindel,Atlas-Indel
KRT2	3849	hgsc.bcm.edu	37	12	53045601	53045603	+	In_Frame_Del	DEL	CTG	CTG	-	rs369691469		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTG	CTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	12	143	0	0.0816327	0	.	.	weak	.	KRT2	94	.	NM_000423	exon1	c.325_327del	p.109_109del	.	.	PASS	Atlas-Indel
CCDC37	348807	hgsc.bcm.edu	37	3	126142434	126142436	+	In_Frame_Del	DEL	GGA	GGA	-	rs140223152	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	39	150	.	0.267	.	GGA|0.949;-|0.051	0.051	strong	.	CCDC37	69	.	NM_182628	exon13	c.1232_1234del	p.411_412del	.	.	PASS	Pindel,Atlas-Indel
AK5	26289	hgsc.bcm.edu	37	1	78024345	78024346	+	In_Frame_Ins	INS	-	-	TAT	rs79671213	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	54	291	.	0.207	.	-|0.343;TAT|0.657	0.657	strong	.	AK5	86	.	NM_174858	exon14	c.1679_1680insTAT	p.S560delinsSI	.	.	PASS	Pindel,Atlas-Indel
EPHX2	2053	hgsc.bcm.edu	37	8	27394334	27394335	+	In_Frame_Ins	INS	-	-	GTC	rs71553864	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	222	64	153	.	0.288	.	-|0.973;GTC|0.027	0.027	strong	.	EPHX2	57	.	NM_001979	exon13	c.1204_1205insGTC	p.S402delinsSR	.	.	PASS	Pindel,Atlas-Indel
RPGR	6103	hgsc.bcm.edu	37	X	38147286	38147288	+	In_Frame_Del	DEL	TTG	TTG	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	59	212	.	0.720	.	.	.	none	.	RPGR	175	.	NM_001034853	exon14	c.1580_1582del	p.527_528del	.	.	PASS	Pindel,Atlas-Indel
ZBTB33	10009	hgsc.bcm.edu	37	X	119387833	119387834	+	In_Frame_Ins	INS	-	-	TGA	rs201958171	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	54	207	.	0.562	.	-|0.437;TGA|0.563	0.563	strong	.	ZBTB33	72	.	NM_006777	exon2	c.563_564insTGA	p.S188delinsSD	.	.	PASS	Pindel,Atlas-Indel
NXF1	10482	hgsc.bcm.edu	37	11	62569105	62569106	+	Splice_Site	INS	-	-	AC	rs146787397	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	35	118	.	0.307	.	-|0.907;AC|0.093	0.093	strong	.	NXF1	67	.	NM_006362	exon8	c.640-2->GT	.	.	.	PASS	Pindel,Atlas-Indel
BDNF	627	hgsc.bcm.edu	37	11	27681174	27681175	+	RNA	INS	-	-	TG	rs71449160	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	80	184	0	0.390244	0	-|0.500;CT|0.500	.	strong	.	BDNF	63	.	.	.	.	.	.	.	PASS	Atlas-Indel
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240782	39240796	+	In_Frame_Del	DEL	CTGCTGCCGCCCCAG	CTGCTGCCGCCCCAG	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTGCTGCCGCCCCAG	CTGCTGCCGCCCCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	84	90	0	0.688525	0	.	.	none	KRTAP4-9_ENST00000377734,NS,carcinoma,0,2	KRTAP4-7	49	2	NM_033061	exon1	c.323_337del	p.108_113del	.	.	PASS	Atlas-Indel
TMPRSS3	64699	hgsc.bcm.edu	37	21	43803308	43803309	+	Splice_Site	INS	-	-	TA	rs56283966	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	17	57	.	0.266	.	-|0.840;TA|0.160	0.160	strong	TMPRSS3,NS,carcinoma,0,2	TMPRSS3	40	2	NM_024022	exon9	c.617-1->TA	.	.	.	PASS	Pindel,Atlas-Indel
ALMS1	7840	hgsc.bcm.edu	37	2	73675227	73675228	+	In_Frame_Ins	INS	-	-	CTC	rs34628045	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	68	225	.	0.349	.	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
MAMDC2	256691	hgsc.bcm.edu	37	9	72755129	72755131	+	In_Frame_Del	DEL	AAA	AAA	-	rs61609258	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AAA	AAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	30	81	.	0.330	.	AAA|0.905;-|0.095	0.095	strong	.	MAMDC2	55	.	NM_153267	exon8	c.1062_1064del	p.354_355del	.	.	PASS	Pindel,Atlas-Indel
PRSS16	10279	hgsc.bcm.edu	37	6	27223065	27223079	+	In_Frame_Del	DEL	AAGGAGAGCCAGATT	AAGGAGAGCCAGATT	-	rs141138864	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AAGGAGAGCCAGATT	AAGGAGAGCCAGATT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	61	130	.	0.581	.	AAGGAGAGCCAGATT|0.883;-|0.117	0.117	strong	.	PRSS16	66	.	NM_005865	exon12	c.1515_1529del	p.505_510del	.	.	PASS	Pindel,Atlas-Indel
PBOV1	59351	hgsc.bcm.edu	37	6	138539183	138539184	+	Frame_Shift_Ins	INS	-	-	G	rs3841283	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	49	253	.	0.238	.	-|0.811;G|0.189	0.189	strong	PBOV1_ENST00000527246,bladder,carcinoma,-1,2	PBOV1	12	2	NM_021635	exon1	c.350_351insC	p.L117fs	.	.	PASS	Pindel,Atlas-Indel
DSPP	1834	hgsc.bcm.edu	37	4	88536317	88536319	+	In_Frame_Del	DEL	AGC	AGC	-	rs143008261	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AGC	AGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	397	68	417	.	0.171	.	AGC|0.917;-|0.083	0.083	strong	.	DSPP	174	.	NM_014208	exon5	c.2502_2504del	p.834_835del	.	.	PASS	Pindel,Atlas-Indel
CD200R1L	344807	hgsc.bcm.edu	37	3	112545911	112545911	+	Frame_Shift_Del	DEL	T	T	-	rs58161637	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	54	116	.	0.340	.	T|0.815;-|0.185	0.185	strong	CD200R1L,NS,carcinoma,-1,1	CD200R1L	47	1	NM_001008784	exon4	c.609delC	p.H203fs	.	.	PASS	Pindel,Atlas-Indel
P2RX5	5026	hgsc.bcm.edu	37	17	3594277	3594277	+	Frame_Shift_Del	DEL	G	G	-	rs3215407	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	21	64	.	0.350	.	G|0.374;-|0.626	0.626	strong	.	P2RX5	36	.	NM_001204519	exon3	c.334delA	p.N112fs	.	.	PASS	Pindel,Atlas-Indel
ZNF527	84503	hgsc.bcm.edu	37	19	37879855	37879855	+	Frame_Shift_Del	DEL	T	T	-	rs200420244	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	45	123	0	0.36	0	T|0.910;-|0.090	0.090	strong	.	ZNF527	78	.	NM_032453	exon5	c.903delA	p.P301fs	.	.	PASS	Atlas-Indel
CASP8AP2	9994	hgsc.bcm.edu	37	6	90577707	90577707	+	Frame_Shift_Del	DEL	G	G	-	rs202116886	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	14	92	0	0.208955	0	.	.	alt	.	CASP8AP2	108	.	NM_001137668	exon8	c.4697delT	p.L1566X	.	.	PASS	Atlas-Indel
C14orf23	387978	hgsc.bcm.edu	37	14	29261305	29261305	+	RNA	DEL	A	A	-	rs202195469	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	16	104	0	0.134454	0	A|0.648;-|0.352	0.352	strong	.	C14orf23	5	.	.	.	.	.	.	.	PASS	Atlas-Indel
TRIOBP	11078	hgsc.bcm.edu	37	22	38120176	38120178	+	In_Frame_Del	DEL	CCT	CCT	-	rs36219868	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	639	230	533	0	0.359937	0	.	.	strong	.	TRIOBP	262	.	NM_001039141	exon7	c.1612_1614del	p.538_538del	.	.	PASS	Atlas-Indel
TCEB3CL2	100506888	hgsc.bcm.edu	37	18	44543098	44543099	+	Frame_Shift_Ins	INS	-	-	GC	rs373334809		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	591	97	621	0	0.164129	0	.	.	weak	.	.	.	.	NM_001242907	exon1	c.1274_1275insGC	p.Q425fs	.	.	PASS	Atlas-Indel
LAD1	3898	hgsc.bcm.edu	37	1	201356002	201356004	+	In_Frame_Del	DEL	CCA	CCA	-	rs78190062	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CCA	CCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	50	149	.	0.314	.	CCA|0.886;-|0.114	0.114	strong	.	LAD1	42	.	NM_005558	exon3	c.486_488del	p.162_163del	.	.	PASS	Pindel,Atlas-Indel
SRA1	10011	hgsc.bcm.edu	37	5	139931629	139931630	+	Frame_Shift_Ins	INS	-	-	G	rs5871740	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	38	201	0	0.2	0	.	.	weak	SRA1,NS,carcinoma,+1,2	SRA1	24	2	NM_001035235	exon3	c.328_329insC	p.V110fs	.	.	PASS	Atlas-Indel
FAM154B	283726	hgsc.bcm.edu	37	15	82574734	82574735	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	34	87	.	0.374	.	.	.	none	.	FAM154B	50	.	NM_001008226	exon3	c.527_528del	p.176_176del	.	.	PASS	Pindel,Atlas-Indel
OR2T12	127064	hgsc.bcm.edu	37	1	248458876	248458876	+	Frame_Shift_Del	DEL	T	T	-	rs11339452	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	429	192	444	0	0.447552	0	T|0.803;-|0.197	0.197	strong	OR2T12,NS,carcinoma,-1,1	OR2T12	113	1	NM_001004692	exon1	c.6delG	p.E2fs	.	.	PASS	Atlas-Indel
RAI1	10743	hgsc.bcm.edu	37	17	17697102	17697102	+	Frame_Shift_Del	DEL	G	G	-	rs34083643		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	21	90	0	0.259259	0	.	.	weak	RAI1,colon,carcinoma,-1,3	RAI1	121	3	NM_030665	exon3	c.839delA	p.Q280fs	.	.	PASS	Atlas-Indel
C17orf80	55028	hgsc.bcm.edu	37	17	71241322	71241325	+	Frame_Shift_Del	DEL	GTAA	GTAA	-	rs202220073	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GTAA	GTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	47	129	.	0.373	.	GTAA|0.994;-|0.006	0.006	strong	.	C17orf80	37	.	NM_001100622	exon6	c.1744_1747del	p.582_583del	.	.	PASS	Pindel,Atlas-Indel
ARSD	414	hgsc.bcm.edu	37	X	2835999	2836007	+	In_Frame_Del	DEL	CCACGCCGG	CCACGCCGG	-	rs113556864		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CCACGCCGG	CCACGCCGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	36	142	0	0.330275	0	CCACGCCGG|0.500;-|0.500	0.500	weak	.	ARSD	47	.	NM_001669	exon5	c.702_710del	p.234_237del	.	.	PASS	Atlas-Indel
OR6C1	390321	hgsc.bcm.edu	37	12	55714406	55714407	+	Frame_Shift_Ins	INS	-	-	A	rs5798345	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	47	87	.	0.522	.	-|0.656;A|0.344	0.344	strong	.	OR6C1	58	.	NM_001005182	exon1	c.23_24insA	p.T8fs	.	.	PASS	Pindel,Atlas-Indel
PRSS48	345062	hgsc.bcm.edu	37	4	152201018	152201019	+	Frame_Shift_Ins	INS	-	-	CAGGT	rs148861921	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	47	127	.	0.299	.	.	.	strong	.	PRSS48	91	.	NM_183375	exon2	c.123_124insCAGGT	p.W41fs	.	.	PASS	Pindel,Atlas-Indel
NRD1	4898	hgsc.bcm.edu	37	1	52306064	52306066	+	In_Frame_Del	DEL	TCT	TCT	-	rs35723519	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	319	54	374	.	0.169	.	TCT|0.388;-|0.612	0.612	strong	NRD1,caecum,carcinoma,0,1	NRD1	89	1	NM_002525	exon2	c.463_465del	p.155_155del	.	.	PASS	Pindel,Atlas-Indel
MIR509-1	574514	hgsc.bcm.edu	37	X	146340339	146340339	+	RNA	DEL	T	T	-	rs36092315	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	56	953	.	0.589	.	T|0.937;-|0.063	0.063	strong	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
C21orf58	54058	hgsc.bcm.edu	37	21	47721985	47721986	+	In_Frame_Ins	INS	-	-	TGG	rs71318063	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	21	95	.	0.375	.	-|0.500;TGG|0.500	0.500	strong	.	C21orf58	25	.	NM_058180	exon8	c.897_898insCCA	p.H299delinsHH	.	.	PASS	Pindel,Atlas-Indel
CA9	768	hgsc.bcm.edu	37	9	35674059	35674059	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	37	120	.	0.306	.	.	.	none	.	CA9	48	.	NM_001216	exon1	c.102delT	p.P34fs	.	.	PASS	Pindel,Atlas-Indel
NFKBIE	4794	hgsc.bcm.edu	37	6	44232842	44232845	+	Frame_Shift_Del	DEL	GTGT	GTGT	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GTGT	GTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	22	112	.	0.151	.	.	.	none	.	NFKBIE	31	.	NM_004556	exon1	c.657_660del	p.219_220del	.	.	PASS	Pindel,Atlas-Indel
TCEB3C	162699	hgsc.bcm.edu	37	18	44549025	44549026	+	Frame_Shift_Ins	INS	-	-	GC	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	693	132	760	0	0.190476	0	.	.	none	.	TCEB3C	49	.	NM_145653	exon1	c.1274_1275insGC	p.Q425fs	.	.	PASS	Atlas-Indel
HSP90B1	7184	hgsc.bcm.edu	37	12	104341188	104341190	+	In_Frame_Del	DEL	GAA	GAA	-	rs5800607	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	57	196	.	0.318	.	GAA|0.865;-|0.135	0.135	strong	.	HSP90B1	72	.	NM_003299	exon17	c.2361_2363del	p.787_788del	.	.	PASS	Pindel,Atlas-Indel
HNRNPA1L2	144983	hgsc.bcm.edu	37	13	53216702	53216702	+	Frame_Shift_Del	DEL	A	A	-	rs374312718		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	27	83	.	0.338	.	.	.	weak	.	HNRNPA1L2	20	.	NM_001011725	exon6	c.74delC	p.T25fs	.	.	PASS	Pindel,Atlas-Indel
ZNF527	84503	hgsc.bcm.edu	37	19	37879852	37879853	+	Frame_Shift_Ins	INS	-	-	TGTG	rs376931538	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	45	124	0	0.346154	0	.	.	weak	.	ZNF527	78	.	NM_032453	exon5	c.901_902insTGTG	p.P301fs	.	.	PASS	Atlas-Indel
AGAP6	414189	hgsc.bcm.edu	37	10	51768675	51768676	+	Frame_Shift_Del	DEL	AA	AA	-	rs113234838		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	26	125	.	0.179	.	AA|0.500;-|0.500	0.500	weak	.	AGAP6	53	.	NM_001077665	exon8	c.789_790del	p.263_264del	.	.	PASS	Pindel,Atlas-Indel
DNAH14	127602	hgsc.bcm.edu	37	1	225380562	225380565	+	Frame_Shift_Del	DEL	AAAG	AAAG	-	rs144339803	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AAAG	AAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	57	136	.	0.324	.	AAAG|0.968;-|0.032	0.032	strong	.	DNAH14	300	.	NM_001373	exon37	c.5768_5771del	p.1923_1924del	.	.	PASS	Pindel,Atlas-Indel
ZFYVE19	84936	hgsc.bcm.edu	37	15	41099899	41099900	+	Frame_Shift_Ins	INS	-	-	GGGGC	rs142730574	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	18	194	0	0.209302	0	-|0.663;GGGGC|0.337	0.337	strong	.	ZFYVE19	31	.	NM_001077268	exon1	c.112_113insGGGGC	p.W38fs	.	.	PASS	Atlas-Indel
RAI1	10743	hgsc.bcm.edu	37	17	17697099	17697100	+	Frame_Shift_Del	DEL	GC	GC	-	rs35068024	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	22	86	0	0.282051	0	GC|0.875;-|0.125	0.125	strong	.	RAI1	121	.	NM_030665	exon3	c.836_837del	p.279_279del	.	.	PASS	Atlas-Indel
C21orf49	54067	hgsc.bcm.edu	37	21	34169317	34169318	+	RNA	INS	-	-	T	rs79751775	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	36	104	.	0.310	.	T|1.000;|0.000	1.000	weak	.	C21orf49	1	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
IL32	9235	hgsc.bcm.edu	37	16	3119297	3119298	+	Frame_Shift_Ins	INS	-	-	G	rs71818662	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	36	139	.	0.166	.	.	.	strong	IL32,NS,carcinoma,0,1	IL32	32	1	NM_004221	exon7	c.508_509insG	p.R170fs	.	.	PASS	Pindel,Atlas-Indel
FAM90A1	55138	hgsc.bcm.edu	37	12	8374781	8374782	+	In_Frame_Ins	INS	-	-	ACG	rs71265055	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	62	252	.	0.400	.	-|0.250;ACG|0.750	0.750	strong	.	FAM90A1	68	.	NM_018088	exon7	c.1032_1033insCGT	p.T344delinsTV	.	.	PASS	Pindel,Atlas-Indel
CASP8AP2	9994	hgsc.bcm.edu	37	6	90577712	90577728	+	Frame_Shift_Del	DEL	CTTTGCCCAGACATGGA	CTTTGCCCAGACATGGA	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTTTGCCCAGACATGGA	CTTTGCCCAGACATGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	12	93	0	0.196721	0	.	.	none	.	CASP8AP2	108	.	NM_001137668	exon8	c.4702_4718del	p.1568_1573del	.	.	PASS	Atlas-Indel
RBM19	9904	hgsc.bcm.edu	37	12	114392971	114392972	+	In_Frame_Ins	INS	-	-	GGT	rs71443069	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	38	138	.	0.336	.	-|0.983;GGT|0.017	0.017	strong	.	RBM19	117	.	NM_001146699	exon7	c.886_887insACC	p.V296delinsTV	.	.	PASS	Pindel,Atlas-Indel
KRT24	192666	hgsc.bcm.edu	37	17	38858135	38858135	+	Frame_Shift_Del	DEL	A	A	-	rs11309872	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	355	84	302	.	0.237	.	A|0.541;-|0.459	0.459	strong	KRT24,NS,lymphoid_neoplasm,0,1	KRT24	60	1	NM_019016	exon2	c.667delG	p.A223fs	.	.	PASS	Pindel,Atlas-Indel
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45970760	45970774	+	In_Frame_Del	DEL	CTTGCAGCAGACAGG	CTTGCAGCAGACAGG	-	rs67692969	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTTGCAGCAGACAGG	CTTGCAGCAGACAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	52	260	0	0.285714	0	CTTGCAGCAGACAGG|0.758;-|0.242	0.242	strong	.	KRTAP10-2	21	.	NM_198693	exon1	c.569_583del	p.190_195del	.	.	PASS	Atlas-Indel
PITRM1	10531	hgsc.bcm.edu	37	10	3193558	3193570	+	Splice_Site	DEL	AAAAAAGAAACAA	AAAAAAGAAACAA	-	rs60985673	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AAAAAAGAAACAA	AAAAAAGAAACAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	17	50	.	0.340	.	AAAAAAGAAACAA|0.500;-|0.500	0.500	strong	.	PITRM1	109	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
WDR73	84942	hgsc.bcm.edu	37	15	85186877	85186894	+	In_Frame_Del	DEL	CTTGGCTCCGTGTTCCAT	CTTGGCTCCGTGTTCCAT	-	rs11267906	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTTGGCTCCGTGTTCCAT	CTTGGCTCCGTGTTCCAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	37	143	.	0.243	.	.	.	strong	.	WDR73	15	.	NM_032856	exon8	c.945_962del	p.315_321del	.	.	PASS	Pindel,Atlas-Indel
GLIPR1L2	144321	hgsc.bcm.edu	37	12	75804262	75804262	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	43	134	.	0.316	.	.	.	none	.	GLIPR1L2	54	.	NM_152436	exon2	c.282delA	p.K94fs	.	.	PASS	Pindel,Atlas-Indel
SLC22A1	6580	hgsc.bcm.edu	37	6	160560881	160560883	+	In_Frame_Del	DEL	ATG	ATG	-	rs202220802	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	ATG	ATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	19	49	0	0.311475	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
HOXB1	3211	hgsc.bcm.edu	37	17	46608184	46608185	+	In_Frame_Ins	INS	-	-	GGGCGCTGT	rs145570960	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	21	40	.	0.525	.	.	.	strong	.	HOXB1	67	.	NM_002144	exon1	c.83_84insACAGCGCCC	p.P28delinsHSAP	.	.	PASS	Pindel,Atlas-Indel
MIR600HG	81571	hgsc.bcm.edu	37	9	125875138	125875139	+	RNA	INS	-	-	AGGGGC	rs140944398	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	47	180	.	0.662	.	.	.	strong	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
NUCB2	4925	hgsc.bcm.edu	37	11	17352478	17352480	+	In_Frame_Del	DEL	ACA	ACA	-	rs3842269	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	ACA	ACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	47	167	.	0.301	.	ACA|0.718;-|0.282	0.282	strong	.	NUCB2	31	.	NM_005013	exon13	c.1202_1204del	p.401_402del	.	.	PASS	Pindel,Atlas-Indel
CARD10	29775	hgsc.bcm.edu	37	22	37906309	37906314	+	In_Frame_Del	DEL	CTCCTT	CTCCTT	-	rs113275238	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTCCTT	CTCCTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25	12	31	.	0.480	.	CTCCTT|0.500;-|0.500	0.500	strong	.	CARD10	55	.	NM_014550	exon4	c.815_820del	p.272_274del	.	.	PASS	Pindel,Atlas-Indel
C1orf220	400798	hgsc.bcm.edu	37	1	178514560	178514561	+	RNA	INS	-	-	T	rs34632529	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	78	126	.	0.500	.	-|0.599;T|0.401	0.401	strong	.	C1orf220	11	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
IGLL5	100423062	hgsc.bcm.edu	37	22	23230309	23230311	+	In_Frame_Del	DEL	CTG	CTG	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTG	CTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	19	151	0	0.130137	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.75_77del	p.25_26del	.	.	PASS	Atlas-Indel
GLT6D1	360203	hgsc.bcm.edu	37	9	138516347	138516347	+	Frame_Shift_Del	DEL	A	A	-	rs34217442	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	30	117	.	0.306	.	A|0.829;-|0.171	0.171	strong	.	GLT6D1	56	.	NM_182974	exon5	c.428delG	p.W143fs	.	.	PASS	Pindel,Atlas-Indel
TGM6	343641	hgsc.bcm.edu	37	20	2411657	2411658	+	In_Frame_Ins	INS	-	-	AAC	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	30	63	.	0.375	.	.	.	none	.	TGM6	126	.	NM_198994	exon12	c.1951_1952insAAC	p.E651delinsEQ	.	.	PASS	Pindel,Atlas-Indel
NUP54	53371	hgsc.bcm.edu	37	4	77065318	77065319	+	In_Frame_Ins	INS	-	-	TGT	rs36024409	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	46	152	.	0.272	.	-|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
OR5M1	390168	hgsc.bcm.edu	37	11	56380547	56380550	+	Frame_Shift_Del	DEL	CAGA	CAGA	-	rs72003051	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CAGA	CAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	57	268	.	0.275	.	CAGA|0.853;-|0.147	0.147	strong	.	OR5M1	92	.	NM_001004740	exon1	c.430_433del	p.144_145del	.	.	PASS	Pindel,Atlas-Indel
MDFIC	29969	hgsc.bcm.edu	37	7	114562638	114562639	+	In_Frame_Ins	INS	-	-	GAG	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	13	40	.	0.310	.	.	.	none	.	MDFIC	30	.	NM_001166346	exon1	c.167_168insGAG	p.K56delinsKR	.	.	PASS	Pindel,Atlas-Indel
GAL3ST3	89792	hgsc.bcm.edu	37	11	65811114	65811116	+	In_Frame_Del	DEL	GAG	GAG	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	55	185	.	0.342	.	.	.	none	.	GAL3ST3	40	.	NM_033036	exon3	c.159_161del	p.53_54del	.	.	PASS	Pindel,Atlas-Indel
TRIOBP	11078	hgsc.bcm.edu	37	22	38119755	38119757	+	In_Frame_Del	DEL	CAA	CAA	-	rs67890459	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CAA	CAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	93	183	.	0.557	.	-|0.368;CAA|0.632	0.368	strong	.	TRIOBP	262	.	NM_001039141	exon7	c.1191_1193del	p.397_398del	.	.	PASS	Pindel,Atlas-Indel
PKD1L2	114780	hgsc.bcm.edu	37	16	81242149	81242150	+	Frame_Shift_Del	DEL	TT	TT	-	rs55980345	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	20	55	0	0.487805	0	TT|0.500;-|0.500	0.500	strong	.	PKD1L2	361	.	NM_001076780	exon4	c.707_708del	p.236_236del	.	.	PASS	Atlas-Indel
CELA1	1990	hgsc.bcm.edu	37	12	51723598	51723599	+	Frame_Shift_Ins	INS	-	-	G	rs17860363	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	20	47	.	0.323	.	-|0.851;G|0.149	0.149	strong	.	CELA1	39	.	NM_001971	exon7	c.629_630insC	p.L210fs	.	.	PASS	Pindel,Atlas-Indel
ZNF681	148213	hgsc.bcm.edu	37	19	23927742	23927743	+	Frame_Shift_Del	DEL	CA	CA	-	rs61397759	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	21	59	.	0.375	.	CA|0.870;-|0.130	0.130	strong	LOC148213,extremity,malignant_melanoma,-1,1	ZNF681	76	1	NM_138286	exon4	c.610_611del	p.204_204del	.	.	PASS	Pindel,Atlas-Indel
CRIPAK	285464	hgsc.bcm.edu	37	4	1388504	1388505	+	Frame_Shift_Del	DEL	CG	CG	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	289	42	286	0	0.145329	0	.	.	none	.	CRIPAK	185	.	NM_175918	exon1	c.204_205del	p.68_69del	.	.	PASS	Atlas-Indel
HOXD9	3235	hgsc.bcm.edu	37	2	176988290	176988291	+	In_Frame_Ins	INS	-	-	GCA	rs56007470	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	10	22	.	0.323	.	-|0.685;GCA|0.315	0.315	strong	.	HOXD9	49	.	NM_014213	exon1	c.794_795insGCA	p.P265delinsPQ	.	.	PASS	Pindel,Atlas-Indel
PARD6G-AS1	100130522	hgsc.bcm.edu	37	18	77926795	77926796	+	RNA	INS	-	-	ACAAATAAC	rs71338092	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	16	106	.	0.254	.	-|0.795;ACAAATAAC|0.205	0.205	strong	.	.	.	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
EPB41L4A	64097	hgsc.bcm.edu	37	5	111500816	111500817	+	Splice_Site	INS	-	-	TAAAA	rs145708081	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	38	104	0	0.348624	0	-|0.025;TAAAA|0.975	0.975	strong	.	EPB41L4A	130	.	NM_022140	exon24	c.1933-1->TTTTA	.	.	.	PASS	Atlas-Indel
RPGR	6103	hgsc.bcm.edu	37	X	38145632	38145646	+	In_Frame_Del	DEL	CTTCCTCCCCTTCTT	CTTCCTCCCCTTCTT	-	rs200824587	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTTCCTCCCCTTCTT	CTTCCTCCCCTTCTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	20	44	0	0.740741	0	CTTCCTCCCCTTCTT|0.987;-|0.013	0.013	strong	.	RPGR	175	.	NM_001034853	exon15	c.2607_2621del	p.869_874del	.	.	PASS	Atlas-Indel
KIAA0040	9674	hgsc.bcm.edu	37	1	175129924	175129925	+	In_Frame_Ins	INS	-	-	CTT	rs150137790	bycluster;by1000genomes;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	45	96	.	0.304	.	.	.	alt	.	KIAA0040	2	.	NM_001162893	exon5	c.226_227insAAG	p.D76delinsKD	.	.	PASS	Pindel,Atlas-Indel
PKNOX2	63876	hgsc.bcm.edu	37	11	125301193	125301195	+	In_Frame_Del	DEL	GAG	GAG	-	rs3832749	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	21	62	.	0.292	.	GAG|0.918;-|0.082	0.082	strong	.	PKNOX2	60	.	NM_022062	exon13	c.1323_1325del	p.441_442del	.	.	PASS	Pindel,Atlas-Indel
PDE11A	50940	hgsc.bcm.edu	37	2	178494173	178494174	+	In_Frame_Ins	INS	-	-	GGA	rs3830637	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	114	197	.	0.430	.	GGA|1.000;|0.000	1.000	strong	.	PDE11A	283	.	NM_016953	exon20	c.2764_2765insTCC	p.P922delinsSP	.	.	PASS	Pindel,Atlas-Indel
SLC28A1	9154	hgsc.bcm.edu	37	15	85438311	85438312	+	In_Frame_Ins	INS	-	-	TTG	rs151038463	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	33	90	.	0.295	.	-|0.732;TTG|0.268	0.268	strong	.	SLC28A1	118	.	NM_004213	exon6	c.418_419insTTG	p.L140delinsLV	.	.	PASS	Pindel,Atlas-Indel
DCAF8L2	347442	hgsc.bcm.edu	37	X	27765400	27765411	+	In_Frame_Del	DEL	GAGGAGGAGGAG	GAGGAGGAGGAG	-	rs371896121	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GAGGAGGAGGAG	GAGGAGGAGGAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	12	52	.	0.190	.	.	.	alt	.	DCAF8L2	79	.	NM_001136533	exon1	c.387_398del	p.129_133del	.	.	PASS	Pindel,Atlas-Indel
ZNF284	342909	hgsc.bcm.edu	37	19	44590000	44590002	+	In_Frame_Del	DEL	CTC	CTC	-	rs139900131	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	80	187	.	0.482	.	CTC|0.548;-|0.452	0.452	strong	.	ZNF284	38	.	NM_001037813	exon5	c.368_370del	p.123_124del	.	.	PASS	Pindel,Atlas-Indel
ATAD5	79915	hgsc.bcm.edu	37	17	29161956	29161961	+	In_Frame_Del	DEL	CAATGT	CAATGT	-	rs72427574	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CAATGT	CAATGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	58	137	.	0.744	.	CAATGT|0.874;-|0.126	0.126	strong	ATAD5,NS,carcinoma,0,1	ATAD5	150	1	NM_024857	exon2	c.856_861del	p.286_287del	.	.	PASS	Pindel,Atlas-Indel
ERI1	90459	hgsc.bcm.edu	37	8	8887543	8887545	+	In_Frame_Del	DEL	AAC	AAC	-	rs140242735	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AAC	AAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	24	54	.	0.343	.	AAC|0.548;-|0.452	0.452	strong	.	ERI1	20	.	NM_153332	exon7	c.1048_1050del	p.350_350del	.	.	PASS	Pindel,Atlas-Indel
OR13C2	392376	hgsc.bcm.edu	37	9	107367665	107367666	+	Frame_Shift_Del	DEL	GC	GC	-	rs143760725	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	683	122	733	.	0.179	.	.	.	strong	.	OR13C2	46	.	NM_001004481	exon1	c.244_245del	p.82_82del	.	.	PASS	Pindel,Atlas-Indel
ZNF687	57592	hgsc.bcm.edu	37	1	151263677	151263678	+	In_Frame_Ins	INS	-	-	ACA	rs145032688	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	14	25	.	0.438	.	-|0.977;ACA|0.023	0.023	strong	.	ZNF687	94	.	NM_020832	exon9	c.3706_3707insACA	p.D1236delinsDN	.	.	PASS	Pindel,Atlas-Indel
STRC	161497	hgsc.bcm.edu	37	15	43910866	43910867	+	In_Frame_Ins	INS	-	-	CAG	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	240	52	254	.	0.217	.	.	.	none	.	STRC	58	.	NM_153700	exon1	c.55_56insCTG	p.S19delinsLS	.	.	PASS	Pindel,Atlas-Indel
PLAC4	191585	hgsc.bcm.edu	37	21	42551433	42551433	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	26	176	0	0.118182	0	.	.	none	.	.	.	.	NM_182832	exon1	c.124delA	p.R42fs	.	.	PASS	Atlas-Indel
ATXN1	6310	hgsc.bcm.edu	37	6	16327913	16327915	+	In_Frame_Del	DEL	TGA	TGA	-	rs369629396		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	17	72	0	0.186813	0	.	.	weak	ATXN1,colon,carcinoma,0,2	ATXN1	117	2	NM_001128164	exon7	c.628_630del	p.210_210del	.	.	PASS	Atlas-Indel
CDSN	1041	hgsc.bcm.edu	37	6	31084943	31084945	+	In_Frame_Del	DEL	CTT	CTT	-	rs34182778	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	22	72	.	0.247	.	CTT|0.500;-|0.500	0.500	strong	.	CDSN	48	.	NM_001264	exon2	c.448_450del	p.150_150del	.	.	PASS	Pindel,Atlas-Indel
WASH1	100287171	hgsc.bcm.edu	37	9	18075	18075	+	Frame_Shift_Del	DEL	G	G	-	rs71286110		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	20	75	.	0.303	.	G|0.500;-|0.500	0.500	weak	.	.	.	.	NM_182905	exon4	c.362delA	p.H121fs	.	.	PASS	Pindel,Atlas-Indel
TNFAIP3	7128	hgsc.bcm.edu	37	6	138192494	138192501	+	Frame_Shift_Del	DEL	CACCGATA	CACCGATA	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CACCGATA	CACCGATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	12	148	0	0.105263	0	.	.	none	.	TNFAIP3	340	.	NM_006290	exon2	c.129_136del	p.43_46del	.	.	PASS	Atlas-Indel
UBAC1	10422	hgsc.bcm.edu	37	9	138836942	138836944	+	In_Frame_Del	DEL	CCT	CCT	-	rs140946801	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	60	129	.	0.652	.	CCT|0.815;-|0.185	0.185	strong	.	UBAC1	40	.	NM_016172	exon7	c.807_809del	p.269_270del	.	.	PASS	Pindel,Atlas-Indel
ASPHD1	253982	hgsc.bcm.edu	37	16	29912802	29912803	+	In_Frame_Ins	INS	-	-	GGT	rs140411458	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	26	12	40	.	0.462	.	-|0.756;GGT|0.244	0.244	strong	.	ASPHD1	28	.	NM_181718	exon1	c.510_511insGGT	p.Q170delinsQG	.	.	PASS	Pindel,Atlas-Indel
C12orf60	144608	hgsc.bcm.edu	37	12	14976418	14976419	+	Frame_Shift_Del	DEL	TA	TA	-	rs139293175	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TA	TA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	46	105	.	0.329	.	TA|0.835;-|0.165	0.165	strong	.	C12orf60	31	.	NM_175874	exon2	c.548_549del	p.183_183del	.	.	PASS	Pindel,Atlas-Indel
ASPN	54829	hgsc.bcm.edu	37	9	95221948	95221949	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	48	184	.	0.270	.	.	.	none	.	ASPN	52	.	NM_017680	exon7	c.911_912insA	p.I304fs	.	.	PASS	Pindel,Atlas-Indel
TET2	54790	hgsc.bcm.edu	37	4	106197061	106197061	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	22	140	0	0.169231	0	.	.	none	.	TET2	1762	.	NM_001127208	exon11	c.5393delC	p.S1798X	.	.	PASS	Atlas-Indel
EP400	57634	hgsc.bcm.edu	37	12	132547093	132547094	+	In_Frame_Ins	INS	-	-	CAG	rs376034029		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	41	104	0	0.431579	0	.	.	weak	EP400,NS,carcinoma,0,15	EP400	370	15	NM_015409	exon47	c.8181_8182insCAG	p.Q2727delinsQQ	.	.	PASS	Atlas-Indel
SCRN3	79634	hgsc.bcm.edu	37	2	175292581	175292593	+	Frame_Shift_Del	DEL	TCAAATTTATCAG	TCAAATTTATCAG	-	rs145699077	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TCAAATTTATCAG	TCAAATTTATCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	79	403	.	0.267	.	TCAAATTTATCAG|0.751;-|0.249	0.249	strong	.	SCRN3	76	.	NM_024583	exon8	c.1232_1244del	p.411_415del	.	.	PASS	Pindel,Atlas-Indel
TAS2R8	50836	hgsc.bcm.edu	37	12	10958845	10958846	+	Frame_Shift_Ins	INS	-	-	A	rs200711805	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	33	110	.	0.367	.	-|0.994;A|0.006	0.006	strong	TAS2R8,NS,malignant_melanoma,0,1	TAS2R8	42	1	NM_023918	exon1	c.735_736insT	p.F245fs	.	.	PASS	Pindel,Atlas-Indel
GPR50	9248	hgsc.bcm.edu	37	X	150349558	150349569	+	In_Frame_Del	DEL	CACCACTGGCCA	CACCACTGGCCA	-	rs68058591	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CACCACTGGCCA	CACCACTGGCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	36	200	.	0.480	.	CACCACTGGCCA|0.500;-|0.500	0.500	weak	.	GPR50	195	.	NM_004224	exon2	c.1502_1513del	p.501_505del	.	.	PASS	Pindel,Atlas-Indel
MUC20	200958	hgsc.bcm.edu	37	3	195453018	195453018	+	Frame_Shift_Del	DEL	C	C	-	rs144288174	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	447	154	351	0	0.344519	0	C|0.915;-|0.085	0.085	strong	.	MUC20	84	.	NM_152673	exon3	c.1030delG	p.A344fs	.	.	PASS	Atlas-Indel
RFPL1	5988	hgsc.bcm.edu	37	22	29837567	29837569	+	In_Frame_Del	DEL	TCC	TCC	-	rs71324764	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TCC	TCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	345	80	344	.	0.232	.	TCC|0.697;-|0.303	0.303	strong	.	RFPL1	43	.	NM_021026	exon2	c.409_411del	p.137_137del	.	.	PASS	Pindel,Atlas-Indel
CCDC150	284992	hgsc.bcm.edu	37	2	197521469	197521470	+	Frame_Shift_Del	DEL	TG	TG	-	rs143904259	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	50	142	.	0.331	.	TG|0.989;-|0.011	0.011	strong	.	CCDC150	96	.	NM_001080539	exon3	c.288_289del	p.96_97del	.	.	PASS	Pindel,Atlas-Indel
POLQ	10721	hgsc.bcm.edu	37	3	121208704	121208706	+	In_Frame_Del	DEL	TTT	TTT	-	rs41547220	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	26	79	.	0.338	.	TTT|0.989;-|0.011	0.011	strong	.	POLQ	273	.	NM_199420	exon16	c.3073_3075del	p.1025_1025del	.	.	PASS	Pindel,Atlas-Indel
TCEB3C	162699	hgsc.bcm.edu	37	18	44554940	44554941	+	Frame_Shift_Ins	INS	-	-	GC	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	623	107	699	0	0.17175	0	.	.	none	.	TCEB3C	49	.	NM_145653	exon1	c.1274_1275insGC	p.Q425fs	.	.	PASS	Atlas-Indel
PRUNE2	158471	hgsc.bcm.edu	37	9	79324135	79324136	+	In_Frame_Ins	INS	-	-	TGACTGTTGCAG	rs11267622	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	66	274	.	0.250	.	-|0.492;TGACTGTTGCAG|0.508	0.508	strong	.	PRUNE2	331	.	NM_015225	exon8	c.3055_3056insCTGCAACAGTCA	p.S1019delinsLQQSS	.	.	PASS	Pindel,Atlas-Indel
ZNF3	7551	hgsc.bcm.edu	37	7	99662512	99662515	+	Frame_Shift_Del	DEL	TAGT	TAGT	-	rs71689664	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TAGT	TAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	47	126	.	0.324	.	TAGT|0.748;-|0.252	0.252	strong	.	ZNF3	54	.	NM_017715	exon6	c.293_296del	p.98_99del	.	.	PASS	Pindel,Atlas-Indel
TRPM7	54822	hgsc.bcm.edu	37	15	50884289	50884294	+	In_Frame_Del	DEL	ATTTTT	ATTTTT	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	ATTTTT	ATTTTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	10	35	.	0.286	.	.	.	none	.	TRPM7	145	.	NM_017672	exon26	c.4139_4144del	p.1380_1382del	.	.	PASS	Pindel,Atlas-Indel
KRTAP9-9	81870	hgsc.bcm.edu	37	17	39411670	39411671	+	In_Frame_Ins	INS	-	-	ACCTGCTGCAGGACC	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	17	117	.	0.354	.	.	.	none	.	KRTAP9-9	24	.	NM_030975	exon1	c.33_34insACCTGCTGCAGGACC	p.P11delinsPTCCRT	.	.	PASS	Pindel,Atlas-Indel
BCL6B	255877	hgsc.bcm.edu	37	17	6928019	6928020	+	In_Frame_Ins	INS	-	-	CAG	rs146207245	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	46	80	.	0.500	.	.	.	strong	.	BCL6B	85	.	NM_181844	exon4	c.701_702insCAG	p.S234delinsSS	.	.	PASS	Pindel,Atlas-Indel
OR13C2	392376	hgsc.bcm.edu	37	9	107367393	107367396	+	Frame_Shift_Del	DEL	GTTA	GTTA	-	rs143198170	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GTTA	GTTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	378	137	459	0	0.362434	0	.	.	strong	.	OR13C2	46	.	NM_001004481	exon1	c.514_517del	p.172_173del	.	.	PASS	Atlas-Indel
ZNF880	400713	hgsc.bcm.edu	37	19	52887246	52887247	+	In_Frame_Ins	INS	-	-	CAA	rs34678014	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	53	156	.	0.361	.	-|0.657;CAA|0.343	0.343	strong	.	ZNF880	45	.	NM_001145434	exon4	c.413_414insCAA	p.I138delinsIN	.	.	PASS	Pindel,Atlas-Indel
ZNF880	400713	hgsc.bcm.edu	37	19	52887146	52887146	+	Frame_Shift_Del	DEL	A	A	-	rs34470614	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	40	122	.	0.317	.	A|0.672;-|0.328	0.328	strong	.	ZNF880	45	.	NM_001145434	exon4	c.312delT	p.L104fs	.	.	PASS	Pindel,Atlas-Indel
CRIPAK	285464	hgsc.bcm.edu	37	4	1388622	1388623	+	Frame_Shift_Ins	INS	-	-	CA	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	115	260	0	0.756579	0	.	.	none	CRIPAK,NS,carcinoma,0,1	CRIPAK	185	1	NM_175918	exon1	c.323_324insCA	p.L108fs	.	.	PASS	Atlas-Indel
ATF7IP2	80063	hgsc.bcm.edu	37	16	10524657	10524659	+	In_Frame_Del	DEL	GAC	GAC	-	rs56252625	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GAC	GAC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	103	199	.	0.518	.	GAC|0.396;-|0.604	0.604	strong	.	ATF7IP2	40	.	NM_001256160	exon4	c.179_181del	p.60_61del	.	.	PASS	Pindel,Atlas-Indel
FERD3L	222894	hgsc.bcm.edu	37	7	19184746	19184747	+	In_Frame_Ins	INS	-	-	TCT	rs34966908	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	36	66	.	0.581	.	-|0.500;TCT|0.500	0.500	strong	.	FERD3L	63	.	NM_152898	exon1	c.240_241insAGA	p.E80delinsEE	.	.	PASS	Pindel,Atlas-Indel
URI1	8725	hgsc.bcm.edu	37	19	30500119	30500121	+	In_Frame_Del	DEL	TGA	TGA	-	rs3840928	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	28	89	.	0.384	.	TGA|0.500;-|0.500	0.500	strong	.	.	.	.	NM_003796	exon8	c.893_895del	p.298_299del	.	.	PASS	Pindel,Atlas-Indel
ZP3	7784	hgsc.bcm.edu	37	7	76071183	76071184	+	Frame_Shift_Ins	INS	-	-	G	rs3215870	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	737	50	658	0	0.0678426	0	.	.	weak	.	ZP3	32	.	NM_001110354	exon8	c.1085_1086insG	p.V362fs	.	.	PASS	Atlas-Indel
WDR60	55112	hgsc.bcm.edu	37	7	158664075	158664077	+	In_Frame_Del	DEL	GAA	GAA	-	rs145233696	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	22	39	.	0.415	.	GAA|0.880;-|0.120	0.120	strong	.	WDR60	94	.	NM_018051	exon3	c.311_313del	p.104_105del	.	.	PASS	Pindel,Atlas-Indel
POC1B	282809	hgsc.bcm.edu	37	12	89866055	89866064	+	Splice_Site	DEL	AGAAAGAAGA	AGAAAGAAGA	-	rs59139895	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AGAAAGAAGA	AGAAAGAAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	19	70	.	0.413	.	-|1.000;|0.000	1.000	strong	.	POC1B	41	.	.	.	.	.	.	.	PASS	Pindel,Atlas-Indel
OR13C5	138799	hgsc.bcm.edu	37	9	107361451	107361452	+	Frame_Shift_Del	DEL	GC	GC	-	rs35762823	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	532	99	664	0	0.18609	0	GC|0.500;-|0.500	0.500	strong	.	OR13C5	60	.	NM_001004482	exon1	c.244_245del	p.82_82del	.	.	PASS	Atlas-Indel
SYNPO2	171024	hgsc.bcm.edu	37	4	119947962	119947964	+	In_Frame_Del	DEL	AAG	AAG	-	rs70944826	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	40	94	.	0.315	.	AAG|0.631;-|0.369	0.369	strong	.	SYNPO2	353	.	NM_001128934	exon3	c.437_439del	p.146_147del	.	.	PASS	Pindel,Atlas-Indel
MLL4	8085	hgsc.bcm.edu	37	19	36211375	36211377	+	In_Frame_Del	DEL	AAG	AAG	-	rs199534880	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	39	120	.	0.305	.	AAG|0.983;-|0.017	0.017	strong	.	MLL4	229	.	NM_014727	exon3	c.1125_1127del	p.375_376del	.	.	PASS	Pindel,Atlas-Indel
OR51I2	390064	hgsc.bcm.edu	37	11	5475431	5475432	+	Frame_Shift_Ins	INS	-	-	CA	rs35301588	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	310	121	294	.	0.390	.	-|0.792;CA|0.208	0.208	strong	.	OR51I2	76	.	NM_001004754	exon1	c.713_714insCA	p.L238fs	.	.	PASS	Pindel,Atlas-Indel
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057613	46057627	+	In_Frame_Del	DEL	CTGCTGTGTGCCTGT	CTGCTGTGTGCCTGT	-	rs66931310	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTGCTGTGTGCCTGT	CTGCTGTGTGCCTGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	29	270	.	0.162	.	CTGCTGTGTGCCTGT|0.469;-|0.531	0.531	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.278_292del	p.93_98del	.	.	PASS	Pindel,Atlas-Indel
RSU1	6251	hgsc.bcm.edu	37	10	16635400	16635402	+	In_Frame_Del	DEL	TTC	TTC	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TTC	TTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	71	205	.	0.333	.	.	.	none	.	RSU1	31	.	NM_012425	exon9	c.826_828del	p.276_276del	.	.	PASS	Pindel,Atlas-Indel
ADAMTS7	11173	hgsc.bcm.edu	37	15	79059020	79059021	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	12	74	0	0.0722892	0	.	.	none	.	ADAMTS7	142	.	NM_014272	exon19	c.3233_3234insT	p.Y1078fs	.	.	PASS	Atlas-Indel
ALPK2	115701	hgsc.bcm.edu	37	18	56204388	56204402	+	In_Frame_Del	DEL	CAGTTGATGTGTCCT	CAGTTGATGTGTCCT	-	rs67925233	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CAGTTGATGTGTCCT	CAGTTGATGTGTCCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	43	221	.	0.285	.	.	.	strong	.	ALPK2	487	.	NM_052947	exon5	c.3018_3032del	p.1006_1011del	.	.	PASS	Pindel,Atlas-Indel
NCL	4691	hgsc.bcm.edu	37	2	232325415	232325417	+	In_Frame_Del	DEL	TCA	TCA	-	rs139777351	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TCA	TCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	273	64	262	.	0.234	.	.	.	strong	.	NCL	80	.	NM_005381	exon4	c.775_777del	p.259_259del	.	.	PASS	Pindel,Atlas-Indel
BZRAP1	9256	hgsc.bcm.edu	37	17	56386607	56386608	+	In_Frame_Ins	INS	-	-	TCCTCCTCT	rs200436316	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	13	78	.	0.167	.	-|0.978;TCCTCCTCT|0.022	0.022	strong	BZRAP1_ENST00000355701,rectum,carcinoma,0,2	BZRAP1	287	2	NM_001261835	exon22	c.4026_4027insAGAGGAGGA	p.D1342delinsEEED	.	.	PASS	Pindel,Atlas-Indel
OR13C5	138799	hgsc.bcm.edu	37	9	107360769	107360769	+	Frame_Shift_Del	DEL	T	T	-	rs11314210	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	46	164	.	0.303	.	T|0.620;-|0.380	0.380	strong	.	OR13C5	60	.	NM_001004482	exon1	c.927delC	p.H309fs	.	.	PASS	Pindel,Atlas-Indel
TPTE	7179	hgsc.bcm.edu	37	21	10942925	10942927	+	In_Frame_Del	DEL	CTT	CTT	-	rs113444703	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	844	220	409	0	0.260664	0	CTT|0.500;-|0.500	0.500	strong	.	TPTE	513	.	NM_199261	exon12	c.661_663del	p.221_221del	.	.	PASS	Atlas-Indel
WWTR1	25937	hgsc.bcm.edu	37	3	149238595	149238596	+	Frame_Shift_Ins	INS	-	-	TTAA	rs112399999	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	37	158	.	0.222	.	TTAA|1.000;|0.000	1.000	strong	.	WWTR1	42	.	NM_015472	exon7	c.1200_1201insTTAA	p.L400_X401delinsLX	.	.	PASS	Pindel,Atlas-Indel
CLEC17A	388512	hgsc.bcm.edu	37	19	14694175	14694176	+	In_Frame_Ins	INS	-	-	GGA	rs34295949	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	361	74	301	.	0.205	.	-|0.500;GGA|0.500	0.500	weak	.	CLEC17A	27	.	NM_207390	exon2	c.50_51insGGA	p.M17delinsME	.	.	PASS	Pindel,Atlas-Indel
KIAA1199	57214	hgsc.bcm.edu	37	15	81241247	81241249	+	In_Frame_Del	DEL	GAA	GAA	-	rs200201338	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	27	107	.	0.338	.	GAA|0.991;-|0.009	0.009	strong	.	KIAA1199	118	.	NM_018689	exon29	c.4067_4069del	p.1356_1357del	.	.	PASS	Pindel,Atlas-Indel
KIAA1841	84542	hgsc.bcm.edu	37	2	61361326	61361326	+	Frame_Shift_Del	DEL	G	G	-	rs142269591	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	96	156	.	0.539	.	G|0.962;-|0.038	0.038	strong	.	KIAA1841	95	.	NM_032506	exon21	c.2082delT	p.S694fs	.	.	PASS	Pindel,Atlas-Indel
SKA3	221150	hgsc.bcm.edu	37	13	21746601	21746601	+	Frame_Shift_Del	DEL	G	G	-	rs151272242	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	36	122	0	0.236842	0	.	.	strong	.	SKA3	76	.	NM_145061	exon3	c.209delA	p.Q70fs	.	.	PASS	Atlas-Indel
TRAK1	22906	hgsc.bcm.edu	37	3	42251578	42251580	+	In_Frame_Del	DEL	GGA	GGA	-	rs10634555	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	20	96	.	0.208	.	.	.	strong	TRAK1,caecum,carcinoma,0,1	TRAK1	188	1	NM_001265608	exon14	c.2063_2065del	p.688_689del	.	.	PASS	Pindel
DMKN	93099	hgsc.bcm.edu	37	19	36002362	36002412	+	In_Frame_Del	DEL	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	33	78	.	0.407	.	.	.	none	.	DMKN	116	.	NM_033317	exon5	c.820_870del	p.274_290del	.	.	PASS	Pindel
OVGP1	5016	hgsc.bcm.edu	37	1	111957515	111957583	+	In_Frame_Del	DEL	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	ACTCACAGGGGTCACAGACTGATGACCCACAGGGGTCAGGGTCTTTTCCCCAGGGGTCACAGACTGATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	39	177	.	0.500	.	.	.	none	.	OVGP1	177	.	NM_002557	exon11	c.1541_1609del	p.514_537del	.	.	PASS	Pindel
CLCA4	22802	hgsc.bcm.edu	37	1	87045897	87045902	+	In_Frame_Del	DEL	CCTACA	CCTACA	-	rs4001061	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CCTACA	CCTACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	64	178	.	0.557	.	CCTACA|0.284;-|0.716	0.716	strong	.	CLCA4	131	.	NM_012128	exon14	c.2628_2633del	p.876_878del	.	.	PASS	Pindel
HLA-B	3106	hgsc.bcm.edu	37	6	31324525	31324531	+	Frame_Shift_Del	DEL	CCTGGGC	CCTGGGC	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CCTGGGC	CCTGGGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	45	58	.	0.344	.	.	.	none	.	HLA-B	54	.	NM_005514	exon2	c.278_284del	p.93_95del	.	.	PASS	Pindel
RIMBP3C	150221	hgsc.bcm.edu	37	22	21741340	21741341	+	In_Frame_Ins	INS	-	-	TGCAGG	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	15	2	.	1.000	.	.	.	none	.	RIMBP3C	6	.	NM_001128633	exon1	c.3193_3194insTGCAGG	p.L1065delinsLQV	.	.	PASS	Pindel
SPATA3	130560	hgsc.bcm.edu	37	2	231861033	231861059	+	In_Frame_Del	DEL	CAGCAGCCTAGCCCTGAATCCACACCA	CAGCAGCCTAGCCCTGAATCCACACCA	-	rs72362780	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CAGCAGCCTAGCCCTGAATCCACACCA	CAGCAGCCTAGCCCTGAATCCACACCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	30	140	.	0.291	.	.	.	strong	.	SPATA3	52	.	NM_139073	exon1	c.84_110del	p.28_37del	.	.	PASS	Pindel
PGPEP1L	145814	hgsc.bcm.edu	37	15	99511804	99511805	+	Frame_Shift_Ins	INS	-	-	C	rs5814919	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	56	218	.	0.258	.	-|0.556;C|0.444	0.444	strong	.	PGPEP1L	26	.	NM_001102612	exon5	c.494_495insG	p.V165fs	.	.	PASS	Pindel
ZNF271	10778	hgsc.bcm.edu	37	18	32888075	32888075	+	RNA	DEL	A	A	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	10	45	.	0.167	.	.	.	none	.	ZNF271	16	.	.	.	.	.	.	.	PASS	Pindel
COL6A3	1293	hgsc.bcm.edu	37	2	238244864	238244866	+	In_Frame_Del	DEL	GCA	GCA	-	rs35879189	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GCA	GCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	16	43	.	0.258	.	GCA|0.935;-|0.065	0.065	strong	.	COL6A3	608	.	NM_004369	exon40	c.8878_8880del	p.2960_2960del	.	.	PASS	Pindel
PELP1	27043	hgsc.bcm.edu	37	17	4576216	4576217	+	In_Frame_Ins	INS	-	-	GGCATGGGGCCTGCTGAA	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	33	147	.	0.226	.	.	.	none	.	PELP1	102	.	NM_014389	exon16	c.2070_2071insTTCAGCAGGCCCCATGCC	p.P690delinsPSAGPMP	.	.	PASS	Pindel
KRTAP10-7	386675	hgsc.bcm.edu	37	21	46020656	46020670	+	Frame_Shift_Del	DEL	CTGCTGCGCCCCCAG	CTGCTGCGCCCCCAG	-	rs36208679	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTGCTGCGCCCCCAG	CTGCTGCGCCCCCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	35	142	.	0.455	.	.	.	weak	.	KRTAP10-7	41	.	NM_198689	exon1	c.134_134del	p.45_45del	.	.	PASS	Pindel
PCDHA4	56144	hgsc.bcm.edu	37	5	140186979	140186990	+	In_Frame_Del	DEL	GGGCCGCGGAGG	GGGCCGCGGAGG	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GGGCCGCGGAGG	GGGCCGCGGAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	14	127	.	0.304	.	.	.	none	.	PCDHA4	419	.	NM_031500	exon1	c.206_217del	p.69_73del	.	.	PASS	Pindel
ZNF280D	54816	hgsc.bcm.edu	37	15	56946704	56946704	+	Splice_Site	DEL	A	A	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	20	88	.	0.185	.	.	.	none	.	ZNF280D	82	.	NM_017661	exon19	c.2058-2T>-	.	.	.	PASS	Pindel
NUPL2	11097	hgsc.bcm.edu	37	7	23221797	23221798	+	In_Frame_Ins	INS	-	-	CGGCAGCAACCG	rs200880793	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	11	65	.	0.282	.	-|0.989;CGGCAGCAACCG|0.011	0.011	strong	.	NUPL2	51	.	NM_007342	exon1	c.93_94insCGGCAGCAACCG	p.G31delinsGRQQP	.	.	PASS	Pindel
MUC4	4585	hgsc.bcm.edu	37	3	195508490	195508537	+	In_Frame_Del	DEL	CTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	CTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	CTGAGGAAGCGTCGGTGACAAGAAGAGGAGTGGCGTGACCTGTGGATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	19	108	.	0.170	.	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.9915_9962del	p.3305_3321del	.	.	PASS	Pindel
CASP8AP2	9994	hgsc.bcm.edu	37	6	90577707	90577728	+	Frame_Shift_Del	DEL	GACATCTTTGCCCAGACATGGA	GACATCTTTGCCCAGACATGGA	-	rs202116886	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GACATCTTTGCCCAGACATGGA	GACATCTTTGCCCAGACATGGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	16	89	.	0.235	.	.	.	alt	.	CASP8AP2	108	.	NM_012115	exon8	c.4697_4718del	p.1566_1573del	.	.	PASS	Pindel
NADK	65220	hgsc.bcm.edu	37	1	1684347	1684348	+	In_Frame_Ins	INS	-	-	CCT	rs150880809	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	19	104	.	0.204	.	.	.	strong	.	NADK	79	.	NM_001198994	exon14	c.1772_1773insAGG	p.G591delinsEG	.	.	PASS	Pindel
ZNF527	84503	hgsc.bcm.edu	37	19	37879853	37879855	+	In_Frame_Del	DEL	CAT	CAT	-	rs376931538	bycluster;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CAT	CAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	32	124	.	0.248	.	.	.	alt	.	ZNF527	78	.	NM_032453	exon5	c.901_903del	p.301_301del	.	.	PASS	Pindel
CRIPAK	285464	hgsc.bcm.edu	37	4	1388594	1388622	+	Frame_Shift_Del	DEL	CACGTGCCCATGTGGAGTGCCCGCCTGCT	CACGTGCCCATGTGGAGTGCCCGCCTGCT	-	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	CACGTGCCCATGTGGAGTGCCCGCCTGCT	CACGTGCCCATGTGGAGTGCCCGCCTGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	42	274	.	0.236	.	.	.	none	.	CRIPAK	185	.	NM_175918	exon1	c.294_322del	p.98_108del	.	.	PASS	Pindel
KRT2	3849	hgsc.bcm.edu	37	12	53045615	53045616	+	In_Frame_Ins	INS	-	-	CCTCCAAAGCCGCTGCCG	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	26	142	.	0.186	.	.	.	none	.	KRT2	94	.	NM_000423	exon1	c.312_313insCGGCAGCGGCTTTGGAGG	p.G104delinsGGSGFGG	.	.	PASS	Pindel
PKD1L2	114780	hgsc.bcm.edu	37	16	81242149	81242151	+	In_Frame_Del	DEL	TTT	TTT	-	rs55980345	bycluster;by1000genomes;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	20	55	.	0.476	.	-|0.500;TT|0.500	0.500	alt	.	PKD1L2	361	.	NM_001076780	exon4	c.706_708del	p.236_236del	.	.	PASS	Pindel
ASPN	54829	hgsc.bcm.edu	37	9	95237025	95237027	+	In_Frame_Del	DEL	TCA	TCA	-	rs111419727	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	TCA	TCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	35	89	.	0.324	.	TCA|0.500;-|0.500	0.500	strong	.	ASPN	52	.	NM_001193335	exon2	c.154_156del	p.52_52del	.	.	PASS	Pindel
SLC22A1	6580	hgsc.bcm.edu	37	6	160560883	160560905	+	In_Frame_Del	DEL	GATTTTTATCTCACCTGGTAAGT	GATTTTTATCTCACCTGGTAAGT	-	rs35191146	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	GATTTTTATCTCACCTGGTAAGT	GATTTTTATCTCACCTGGTAAGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	12	46	.	0.200	.	-|0.079;G|0.468;GAT|0.453	0.079	strong	.	SLC22A1	69	.	NM_153187	exon7	c.1259_1276del	p.420_426del	.	.	PASS	Pindel
DNAH5	1767	hgsc.bcm.edu	37	5	13868104	13868104	+	Splice_Site	DEL	A	A	-	rs35398031	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	36	85	.	0.321	.	A|0.250;-|0.750	0.750	strong	.	DNAH5	868	.	NM_001369	exon26	c.3835-2T>-	.	.	.	PASS	Pindel
CD3EAP	10849	hgsc.bcm.edu	37	19	45912490	45912492	+	In_Frame_Del	DEL	AAG	AAG	-	rs35729377	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	21	95	.	0.256	.	.	.	strong	.	CD3EAP	27	.	NM_012099	exon3	c.1263_1265del	p.421_422del	.	.	PASS	Pindel
ACSBG2	81616	hgsc.bcm.edu	37	19	6187800	6187800	+	Missense_Mutation	SNP	G	G	A	rs17856650	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	55	159	0	0.354839	0	G|0.918;A|0.082	0.082	strong	.	ACSBG2	83	.	NM_030924	exon13	c.G1871A	p.R624K	CACAGAGGATTGA	.	PASS	Atlas-SNP
RBMX	27316	hgsc.bcm.edu	37	X	135956586	135956586	+	Silent	SNP	T	T	C	rs35260830	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	33	298	0	0.139241	0	T|0.500;C|0.500	0.500	weak	.	RBMX	149	.	NM_002139	exon9	c.A891G	p.T297T	CCCTCGTGTAGGT	.	PASS	Atlas-SNP
GRM7	2917	hgsc.bcm.edu	37	3	6903297	6903297	+	Silent	SNP	C	C	T	rs3749380	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	31	100	1	0.424658	0.01	C|0.630;T|0.370	0.370	strong	GRM7,caecum,carcinoma,0,1	GRM7	223	1	NM_000844	exon1	c.C222T	p.N74N	GGAAAACGGGATC	.	scavenged	Atlas-SNP
NEO1	4756	hgsc.bcm.edu	37	15	73564881	73564881	+	Silent	SNP	C	C	T	rs1131854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	37	58	0	0.468354	0	C|0.611;T|0.389	0.389	strong	.	NEO1	102	.	NM_001172623	exon19	c.C2943T	p.S981S	TCCCTCCGAAGCC	.	PASS	Atlas-SNP
CST9	128822	hgsc.bcm.edu	37	20	23586360	23586360	+	Missense_Mutation	SNP	G	G	A	rs2983640	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	63	130	0	0.504	0	G|0.526;A|0.474	0.474	strong	.	CST9	26	.	NM_001008693	exon1	c.C142T	p.L48F	TGGCGAGGAACAT	.	PASS	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30893428	30893428	+	Missense_Mutation	SNP	G	G	A	rs2252863	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	92	147	0	0.571429	0	G|0.761;A|0.239	0.239	strong	.	VARS2	60	.	NM_001167734	exon28	c.G2983A	p.A995T	CCAGGCGCAGCAG	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	37	2	73675844	73675844	+	Silent	SNP	C	C	T	rs7598901	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	63	122	0	0.525	0	C|0.465;T|0.535	0.535	strong	.	ALMS1	384	.	NM_015120	exon8	c.C2187T	p.F729F	AGAGTTCGCAGAC	.	PASS	Atlas-SNP
EXOSC2	23404	hgsc.bcm.edu	37	9	133579152	133579152	+	Silent	SNP	G	G	A	rs34680820	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	13	70	0	0.361111	0	G|0.986;A|0.014	0.014	strong	.	EXOSC2	15	.	NM_014285	exon9	c.G873A	p.Q291Q	GGAACAGGAGGGA	.	PASS	Atlas-SNP
TMEM63A	9725	hgsc.bcm.edu	37	1	226054333	226054333	+	Missense_Mutation	SNP	G	G	A	rs45492299	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	86	114	0	0.573333	0	G|0.862;A|0.138	0.138	strong	.	TMEM63A	75	.	NM_014698	exon9	c.C616T	p.L206F	CAGTGAGGAAGAG	.	PASS	Atlas-SNP
ZNF479	90827	hgsc.bcm.edu	37	7	57188148	57188148	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	17	130	0	0.111111	0	.	.	none	ZNF479,NS,carcinoma,+1,1	ZNF479	193	1	NM_033273	exon5	c.G974A	p.C325Y	CACCTGCAGGGTT	.	scavenged	Atlas-SNP
ATF7IP2	80063	hgsc.bcm.edu	37	16	10575824	10575824	+	Silent	SNP	C	C	A	rs1970817	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	121	120	0	1	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
UTS2	10911	hgsc.bcm.edu	37	1	7913029	7913029	+	Missense_Mutation	SNP	A	A	G	rs34305100	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	118	262	0	0.548837	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
MRGPRX3	117195	hgsc.bcm.edu	37	11	18158958	18158958	+	Missense_Mutation	SNP	C	C	T	rs61733595	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	62	153	0	0.402597	0	C|0.987;T|0.013	0.013	strong	MRGPRX3,colon,carcinoma,-1,1	MRGPRX3	59	1	NM_054031	exon3	c.C209T	p.A70V	TGGTCGCGGCCGA	.	PASS	Atlas-SNP
CYP11B2	1585	hgsc.bcm.edu	37	8	143995743	143995743	+	Silent	SNP	C	C	T	rs4543	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	316	165	306	1	0.522152	0.00326797	C|0.880;T|0.120	0.120	strong	.	CYP11B2	107	.	NM_000498	exon5	c.G891A	p.A297A	CAGTTCCGCCTTC	.	PASS	Atlas-SNP
MMS22L	253714	hgsc.bcm.edu	37	6	97599674	97599674	+	Missense_Mutation	SNP	G	G	A	rs138146580	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	109	189	0	0.592391	0	G|0.987;A|0.013	0.013	strong	.	MMS22L	102	.	NM_198468	exon23	c.C3455T	p.P1152L	GAGGAAGGTTCTT	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177935050	177935050	+	Silent	SNP	T	T	A	rs1889981	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	42	93	1	0.442105	0.0107527	T|0.786;A|0.214	0.214	strong	SEC16B,NS,carcinoma,0,1	SEC16B	92	1	NM_033127	exon3	c.A390T	p.P130P	CCACTGTGGGTGT	.	scavenged	Atlas-SNP
FBXW9	84261	hgsc.bcm.edu	37	19	12805424	12805424	+	Missense_Mutation	SNP	C	C	T	rs117566511	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	36	92	0	0.387097	0	C|0.986;T|0.014	0.014	strong	.	FBXW9	30	.	NM_032301	exon3	c.G662A	p.R221Q	CTATTTCGCTTAG	.	PASS	Atlas-SNP
FAM81B	153643	hgsc.bcm.edu	37	5	94749723	94749723	+	Silent	SNP	G	G	A	rs7726891	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	142	156	0	0.993007	0	G|0.759;A|0.241	0.241	strong	.	FAM81B	51	.	NM_152548	exon4	c.G366A	p.A122A	CCAGGCGCGTACC	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133760029	133760029	+	Silent	SNP	C	C	G	rs2229070	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	16	36	0	0.484848	0	C|0.885;G|0.115	0.115	strong	.	ABL1	1632	.	NM_007313	exon11	c.C2409G	p.P803P	TCCCCCCAGGCTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	156	139	0	0.993631	0	G|0.554;C|0.446	0.446	strong	.	PLD4	46	.	NM_138790	exon2	c.G79C	p.E27Q	GACAGAGAGGCTG	.	PASS	Atlas-SNP
KDM4E	390245	hgsc.bcm.edu	37	11	94759494	94759494	+	Missense_Mutation	SNP	T	T	C	rs16921260	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	31	70	0	0.402597	0	T|0.965;C|0.035	0.035	strong	.	KDM4E	60	.	NM_001161630	exon1	c.T773C	p.F258S	TTCCCTTCAATTG	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96118866	96118866	+	Missense_Mutation	SNP	C	C	T	rs17482078	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	154	165	0	0.993548	0	C|0.859;T|0.141	0.141	strong	.	ERAP1	59	.	NM_001198541	exon15	c.G2174A	p.R725Q	AGCATTCGCTCTG	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158592935	158592935	+	Silent	SNP	G	G	A	rs3753068	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	263	201	0	0.992453	0	G|0.680;A|0.320	0.320	strong	SPTA1,mouth,carcinoma,0,1	SPTA1	720	1	NM_003126	exon43	c.C5958T	p.P1986P	GATCTCGGGAAGT	.	PASS	Atlas-SNP
PCDHA9	9752	hgsc.bcm.edu	37	5	140229368	140229368	+	Missense_Mutation	SNP	G	G	C	rs251355	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	290	198	337	0	0.682759	0	G|0.548;C|0.452	0.452	strong	.	PCDHA9	373	.	NM_031857	exon1	c.G1288C	p.G430R	CGGGACGGGGGCT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508249	195508249	+	Missense_Mutation	SNP	A	A	G	rs71187729		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	406	57	281	4	0.140394	0.0142349	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
SEMG2	6407	hgsc.bcm.edu	37	20	43850525	43850525	+	Silent	SNP	A	A	G	rs2233898	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	76	178	0	0.447059	0	A|0.863;G|0.137	0.137	strong	SEMG2,caecum,carcinoma,0,1	SEMG2	92	1	NM_003008	exon2	c.A252G	p.Q84Q	TCAGCAATATGAT	.	PASS	Atlas-SNP
GRM6	2916	hgsc.bcm.edu	37	5	178413947	178413947	+	Silent	SNP	T	T	C	rs11746675	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	92	95	0	0.989247	0	T|0.434;C|0.566	0.566	strong	.	GRM6	149	.	NM_000843	exon7	c.A1392G	p.G464G	CGCATCTCCGTTC	.	PASS	Atlas-SNP
CSNK2A3	283106	hgsc.bcm.edu	37	11	11374269	11374269	+	Missense_Mutation	SNP	A	A	G	rs41334347	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	63	122	0	0.453237	0	A|0.875;G|0.125	0.125	weak	.	.	.	.	NM_001256686	exon1	c.T398C	p.I133T	AATCGAATATCAT	.	PASS	Atlas-SNP
GTF3C1	2975	hgsc.bcm.edu	37	16	27472772	27472772	+	Missense_Mutation	SNP	C	C	T	rs2228248	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	31	48	0	0.5	0	C|0.897;T|0.103	0.103	strong	.	GTF3C1	210	.	NM_001520	exon37	c.G6229A	p.E2077K	GGCTCTCGTCCAG	.	PASS	Atlas-SNP
CCDC176	80127	hgsc.bcm.edu	37	14	74523869	74523869	+	Missense_Mutation	SNP	A	A	G	rs3742809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	48	77	0	0.521739	0	G|0.185;N|0.001	0.185	strong	.	.	.	.	NM_025057	exon11	c.A1486G	p.K496E	CAAGATAAAATCT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179605725	179605725	+	Missense_Mutation	SNP	T	T	C	rs34070843	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	64	113	0	0.474074	0	T|0.989;C|0.011	0.011	strong	.	TTN	18412	.	NM_001267550	exon48	c.A12235G	p.I4079V	TCAAAATGGTGTC	.	PASS	Atlas-SNP
ZFP41	286128	hgsc.bcm.edu	37	8	144332045	144332045	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	43	73	0	0.530864	0	.	.	none	ZFP41,NS,carcinoma,0,1	ZFP41	25	1	NM_173832	exon2	c.C32T	p.T11M	AGAAGACGCCGAC	.	PASS	Atlas-SNP
TRPM1	4308	hgsc.bcm.edu	37	15	31330313	31330313	+	Silent	SNP	A	A	G	rs12913672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	29	64	0	0.402778	0	A|0.799;G|0.201	0.201	strong	.	TRPM1	183	.	NM_001252020	exon18	c.T2424C	p.Y808Y	ATCATCATATGTG	.	PASS	Atlas-SNP
GPAT2	150763	hgsc.bcm.edu	37	2	96688929	96688929	+	Missense_Mutation	SNP	G	G	A	rs76099874		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	385	115	341	0	0.298701	0	A|1.000;|0.000	1.000	weak	GPAT2,NS,adenocarcinoma,0,4	GPAT2	46	4	NM_207328	exon19	c.C2074T	p.R692C	GCAGGCGGCAGAG	.	scavenged	Atlas-SNP
NOD2	64127	hgsc.bcm.edu	37	16	50746228	50746228	+	Silent	SNP	G	G	T	rs104895495	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	66	146	0	0.44898	0	G|0.998;T|0.002	0.002	strong	.	NOD2	118	.	NM_022162	exon4	c.G2406T	p.V802V	CTCTGTGGGTGAC	.	PASS	Atlas-SNP
HRSP12	10247	hgsc.bcm.edu	37	8	99115082	99115082	+	Silent	SNP	C	C	T	rs11537947	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	32	73	0	0.484848	0	C|0.923;T|0.077	0.077	strong	.	HRSP12	13	.	NM_005836	exon6	c.G402A	p.T134T	TGATGCCGTTGTC	.	PASS	Atlas-SNP
NME8	51314	hgsc.bcm.edu	37	7	37896896	37896896	+	Silent	SNP	G	G	A	rs3213976	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	27	80	0	0.428571	0	G|0.912;A|0.088	0.088	strong	.	.	.	.	NM_016616	exon6	c.G219A	p.V73V	CATTGTGACTTTG	.	PASS	Atlas-SNP
TMEM214	54867	hgsc.bcm.edu	37	2	27260469	27260469	+	Missense_Mutation	SNP	G	G	A	rs1124649	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	99	190	0	0.456221	0	G|0.713;A|0.287	0.287	strong	.	TMEM214	41	.	NM_017727	exon9	c.G1051A	p.V351M	CTGAAAGTGCTGG	.	PASS	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	37	4	175899075	175899075	+	Missense_Mutation	SNP	C	C	T	rs140568401	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	67	136	0	0.320574	0	C|0.991;T|0.008	0.008	strong	ADAM29,NS,carcinoma,-1,1	ADAM29	262	1	NM_001130703	exon4	c.C2399T	p.T800I	CTGTGACACCCTC	.	PASS	Atlas-SNP
ZNF33A	7581	hgsc.bcm.edu	37	10	38343772	38343772	+	Missense_Mutation	SNP	G	G	C	rs41276138	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	46	92	0	0.489362	0	G|0.984;C|0.016	0.016	strong	.	ZNF33A	103	.	NM_006954	exon5	c.G720C	p.E240D	GAGAGAGAACGCA	.	PASS	Atlas-SNP
TPTE2	93492	hgsc.bcm.edu	37	13	20006680	20006680	+	Silent	SNP	G	G	C	rs201767816	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	13	212	1	0.0631068	0.00471698	G|0.999;C|0.001	0.001	weak	TPTE2,mouth,carcinoma,0,1	TPTE2	225	1	NM_199254	exon17	c.C1155G	p.L385L	GTTGTAGAGATGT	.	scavenged	Atlas-SNP
DOK7	285489	hgsc.bcm.edu	37	4	3494600	3494600	+	Missense_Mutation	SNP	A	A	G	rs6811423	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	49	133	2	0.426087	0.0150376	A|0.810;G|0.190	0.190	strong	DOK7,NS,carcinoma,0,1	DOK7	44	1	NM_173660	exon7	c.A887G	p.Q296R	CGTCACAGGAGGG	.	scavenged	Atlas-SNP
QARS	5859	hgsc.bcm.edu	37	3	49141116	49141116	+	Silent	SNP	G	G	A	rs5030795	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	57	67	0	0.587629	0	G|0.924;A|0.076	0.076	strong	.	QARS	55	.	NM_005051	exon4	c.C399T	p.H133H	GGGCCGGTGCCTG	.	PASS	Atlas-SNP
PLRG1	5356	hgsc.bcm.edu	37	4	155461113	155461113	+	Silent	SNP	T	T	C	rs7671792	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	134	89	0	1	0	T|0.738;C|0.262	0.262	strong	.	PLRG1	43	.	NM_002669	exon11	c.A1032G	p.Q344Q	AATAATTTGTGGT	.	PASS	Atlas-SNP
TMEM159	57146	hgsc.bcm.edu	37	16	21185384	21185384	+	Missense_Mutation	SNP	G	G	A	rs1046480	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	262	134	208	0	0.51145	0	G|0.845;A|0.155	0.155	strong	.	TMEM159	14	.	NM_020422	exon4	c.G319A	p.G107S	GGTTTGGGCTTCG	.	PASS	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	37	3	113377361	113377361	+	Silent	SNP	A	A	G	rs9813630	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	115	121	1	1	0.00826446	A|0.657;G|0.343	0.343	strong	.	KIAA2018	180	.	NM_001009899	exon7	c.T3168C	p.N1056N	ATCATCATTGTTC	.	PASS	Atlas-SNP
INPP5F	22876	hgsc.bcm.edu	37	10	121586827	121586827	+	Silent	SNP	A	A	G	rs56055506	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	43	67	0	0.462366	0	A|0.835;G|0.165	0.165	strong	INPP5F,NS,carcinoma,0,1	INPP5F	112	1	NM_014937	exon20	c.A2934G	p.R978R	GACCAGATCTGTG	.	PASS	Atlas-SNP
MED16	10025	hgsc.bcm.edu	37	19	880066	880066	+	Silent	SNP	G	G	A	rs34799086	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	14	99	0	0.35	0	G|0.821;A|0.179	0.179	strong	MED16,NS,carcinoma,0,1	MED16	61	1	NM_005481	exon8	c.C1224T	p.S408S	GGCCGCGGAGCTG	.	PASS	Atlas-SNP
GNB1L	54584	hgsc.bcm.edu	37	22	19808874	19808874	+	Missense_Mutation	SNP	G	G	A	rs36070348	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	29	91	0	0.402778	0	G|0.983;A|0.017	0.017	strong	.	GNB1L	34	.	NM_053004	exon3	c.C5T	p.T2M	GGGGCCGTCATGC	.	PASS	Atlas-SNP
ACSBG2	81616	hgsc.bcm.edu	37	19	6187805	6187805	+	Missense_Mutation	SNP	G	G	C	rs17856651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	59	156	0	0.388158	0	G|0.919;C|0.081	0.081	strong	.	ACSBG2	83	.	NM_030924	exon13	c.G1876C	p.E626Q	AGGATTGAAAAGT	.	PASS	Atlas-SNP
PHKG1	5260	hgsc.bcm.edu	37	7	56149362	56149362	+	Silent	SNP	C	C	T	rs11238393	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	30	84	0	0.379747	0	C|0.839;T|0.161	0.161	strong	.	PHKG1	38	.	NM_001258459	exon10	c.G975A	p.V325V	TTCCTCCACCAAG	.	PASS	Atlas-SNP
GLYATL3	389396	hgsc.bcm.edu	37	6	49479775	49479775	+	Silent	SNP	A	A	T	rs1480615	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	48	53	0	1	0	T|0.431;N|0.000	0.431	strong	GLYATL3,trunk,malignant_melanoma,+1,1	GLYATL3	19	1	NM_001010904	exon2	c.A72T	p.S24S	TGAATCACTCAAG	.	PASS	Atlas-SNP
PCDHAC2	56134	hgsc.bcm.edu	37	5	140346712	140346712	+	Silent	SNP	T	T	C	rs155808	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	16	44	0	0.271186	0	T|0.675;C|0.325	0.325	strong	.	PCDHAC2	142	.	NM_031883	exon1	c.T361C	p.L121L	CTCAGCTTGGAAG	.	PASS	Atlas-SNP
DPPA4	55211	hgsc.bcm.edu	37	3	109047928	109047928	+	Silent	SNP	C	C	T	rs1163439	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	93	185	0	0.550296	0	C|0.885;T|0.115	0.115	strong	DPPA4,NS,carcinoma,0,1	DPPA4	56	1	NM_018189	exon6	c.G687A	p.R229R	ACACCACCTGACA	.	PASS	Atlas-SNP
ZSWIM5	57643	hgsc.bcm.edu	37	1	45500064	45500064	+	Missense_Mutation	SNP	C	C	T	rs182892990	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	23	100	0	0.280488	0	C|0.999;T|0.001	0.001	strong	.	ZSWIM5	72	.	NM_020883	exon11	c.G2369A	p.R790H	GGATAACGGCTGG	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17265601	17265601	+	Silent	SNP	C	C	T	rs146792981	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	10	12	0	0.588235	0	C|0.984;T|0.016	0.016	strong	CROCC,NS,haematopoietic_neoplasm,0,1	CROCC	185	1	NM_014675	exon12	c.C1572T	p.I524I	CCTGATCCACTCC	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5396715	5396715	+	Missense_Mutation	SNP	T	T	C	rs35508364	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	108	202	0	0.534653	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
LIFR	3977	hgsc.bcm.edu	37	5	38510603	38510603	+	Silent	SNP	G	G	A	rs61748202	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	52	112	0	0.385185	0	G|0.997;A|0.003	0.003	strong	.	LIFR	348	.	NM_002310	exon7	c.C954T	p.T318T	ATCTTCGGTTGTA	.	PASS	Atlas-SNP
HDAC9	9734	hgsc.bcm.edu	37	7	18767343	18767343	+	Silent	SNP	A	A	G	rs1178127	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	75	186	0	0.431034	0	A|0.663;G|0.337	0.337	strong	.	HDAC9	560	.	NM_178425	exon12	c.A1872G	p.P624P	TCACCCAGCAATG	.	PASS	Atlas-SNP
CHCHD2	51142	hgsc.bcm.edu	37	7	56172086	56172086	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	94	204	0	0.47	0	.	.	none	.	CHCHD2	10	.	NM_016139	exon2	c.T133G	p.S45A	CAGAAGAGCCAAC	.	PASS	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	37	9	136269143	136269143	+	Missense_Mutation	SNP	G	G	A	rs17150554	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	48	117	0	0.387097	0	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	.	PASS	Atlas-SNP
TST	7263	hgsc.bcm.edu	37	22	37414321	37414321	+	Silent	SNP	G	G	A	rs61743068	bycluster;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	37	187	0	0.221557	0	G|0.985;T|0.015	.	alt	.	TST	22	.	NM_003312	exon2	c.C453T	p.A151A	GAAGACGGCCGGT	.	PASS	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	37	10	26463043	26463043	+	Missense_Mutation	SNP	A	A	T	rs3740231	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	62	130	0	0.466165	0	A|0.603;T|0.397	0.397	strong	MYO3A,NS,carcinoma,0,1	MYO3A	371	1	NM_017433	exon30	c.A3850T	p.T1284S	AAAAAAACTTTGG	.	PASS	Atlas-SNP
SALL2	6297	hgsc.bcm.edu	37	14	21991626	21991626	+	Missense_Mutation	SNP	C	C	G	rs1263810	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	66	103	0	0.528	0	C|0.711;G|0.289	0.289	strong	.	SALL2	95	.	NM_005407	exon2	c.G2236C	p.G746R	AACTCCCTGCCCC	.	PASS	Atlas-SNP
CUL7	9820	hgsc.bcm.edu	37	6	43006687	43006687	+	Nonsense_Mutation	SNP	G	G	A	rs121918228	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	52	88	0	0.490566	0	G|1.000;A|0.000	0.000	strong	.	CUL7	133	.	NM_001168370	exon23	c.C4585T	p.R1529X	GCAGTCGCCTCTG	.	PASS	Atlas-SNP
ADAM20	8748	hgsc.bcm.edu	37	14	70990410	70990410	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	53	105	0	0.509615	0	.	.	none	.	ADAM20	59	.	NM_003814	exon2	c.G1215C	p.Q405H	ACACCACTGGGTG	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122386948	122386948	+	Missense_Mutation	SNP	G	G	A	rs78910014	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	42	86	0	0.396226	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
VWA7	80737	hgsc.bcm.edu	37	6	31734345	31734345	+	Silent	SNP	G	G	T	rs3115671	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	21	42	0	0.466667	0	G|0.932;T|0.068	0.068	strong	.	.	.	.	NM_025258	exon14	c.C2079A	p.S693S	AGGGGTGGACAGC	.	PASS	Atlas-SNP
D2HGDH	728294	hgsc.bcm.edu	37	2	242690675	242690675	+	Missense_Mutation	SNP	G	G	A	rs1106639	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	182	182	2	0.994536	0.010989	G|0.742;A|0.258	0.258	strong	D2HGDH,caecum,carcinoma,0,1	D2HGDH	39	1	NM_152783	exon8	c.G1012A	p.V338I	TTTTACGTCCTCA	.	scavenged	Atlas-SNP
MRPL10	124995	hgsc.bcm.edu	37	17	45904420	45904420	+	Missense_Mutation	SNP	C	C	T	rs11538868	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	114	164	0	0.542857	0	C|0.761;T|0.239	0.239	strong	.	MRPL10	24	.	NM_148887	exon4	c.G403A	p.V135I	GGAAGACCTTCAT	.	PASS	Atlas-SNP
VRK2	7444	hgsc.bcm.edu	37	2	58316814	58316814	+	Missense_Mutation	SNP	A	A	G	rs1051061	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	311	309	310	0	0.993569	0	A|0.683;G|0.317	0.317	strong	.	VRK2	46	.	NM_001130480	exon7	c.A499G	p.I167V	GGTGATATAAAAG	.	PASS	Atlas-SNP
MAST2	23139	hgsc.bcm.edu	37	1	46501359	46501359	+	Missense_Mutation	SNP	A	A	G	rs34070850	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	36	86	0	0.553846	0	A|0.956;G|0.044	0.044	strong	.	MAST2	136	.	NM_015112	exon29	c.A5018G	p.K1673R	GCAGAAAGGCAAC	.	PASS	Atlas-SNP
RBM47	54502	hgsc.bcm.edu	37	4	40440215	40440215	+	Silent	SNP	T	T	C	rs2291580	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	44	58	0	1	0	T|0.267;C|0.733	0.733	strong	RBM47_ENST00000381793,NS,carcinoma,0,3	RBM47	146	3	NM_001098634	exon4	c.A696G	p.E232E	CTCAGGTTCGGCC	.	PASS	Atlas-SNP
RRP12	23223	hgsc.bcm.edu	37	10	99125949	99125949	+	Missense_Mutation	SNP	C	C	T	rs2275580	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	55	49	0	1	0	C|0.553;T|0.447	0.447	strong	.	RRP12	97	.	NM_015179	exon29	c.G3433A	p.G1145S	TGAAGCCGTGGTC	.	PASS	Atlas-SNP
GRIP1	23426	hgsc.bcm.edu	37	12	66773075	66773075	+	Missense_Mutation	SNP	C	C	T	rs145115262	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	87	215	0	0.478022	0	C|0.997;T|0.003	0.003	strong	.	GRIP1	106	.	NM_001178074	exon19	c.G2450A	p.R817Q	GTGGACCGGTCCC	.	PASS	Atlas-SNP
MAGEA6	4105	hgsc.bcm.edu	37	X	151869765	151869765	+	Missense_Mutation	SNP	G	G	T	rs7056365	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	274	272	671	2	0.992701	0.00298063	G|0.872;T|0.128	0.128	strong	.	MAGEA6	53	.	NM_005363	exon3	c.G455T	p.S152I	TCTTCAGCAAAGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512531	195512531	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	602	21	282	5	0.0348837	0.0177305	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G5920A	p.A1974T	AGGAAGCGTCGGT	.	scavenged	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745857	50745857	+	Missense_Mutation	SNP	T	T	G	rs34602257	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	63	231	3	0.249012	0.012987	.	.	alt	FAM186A_ENST00000327337,caecum,carcinoma,-1,3	FAM186A	181	3	NM_001145475	exon4	c.A4758C	p.E1586D	CCCCAGTTCCTGC	.	scavenged	Atlas-SNP
KL	9365	hgsc.bcm.edu	37	13	33634983	33634983	+	Silent	SNP	C	C	T	rs564481	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	89	183	0	0.483696	0	C|0.704;T|0.296	0.296	strong	.	KL	106	.	NM_004795	exon4	c.C1767T	p.H589H	AATGCACGTTACA	.	PASS	Atlas-SNP
SMARCA2	6595	hgsc.bcm.edu	37	9	2073292	2073292	+	Silent	SNP	A	A	G	rs13288443	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	53	121	0	0.638554	0	A|0.888;G|0.112	0.112	strong	.	SMARCA2	313	.	NM_139045	exon11	c.A1827G	p.P609P	CGGACCAGAAGCA	.	PASS	Atlas-SNP
MMP7	4316	hgsc.bcm.edu	37	11	102401411	102401411	+	Missense_Mutation	SNP	A	A	C	rs55701929	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	29	43	0	0.491525	0	A|0.988;C|0.012	0.012	strong	.	MMP7	27	.	NM_002423	exon1	c.T21G	p.C7W	CACAGCACACAGC	.	PASS	Atlas-SNP
MBD3L3	653657	hgsc.bcm.edu	37	19	7056537	7056537	+	Silent	SNP	G	G	A	rs201991311	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	58	88	0	0.219697	0	G|0.975;A|0.025	0.025	strong	MBD3L3,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	MBD3L3	12	1	NM_001164425	exon2	c.C423T	p.P141P	AGGGGTGGGCTCA	.	scavenged	Atlas-SNP
DIS3L	115752	hgsc.bcm.edu	37	15	66618342	66618342	+	Missense_Mutation	SNP	A	A	G	rs3803412	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	52	94	0	0.42623	0	A|0.760;G|0.240	0.240	strong	.	DIS3L	175	.	NM_001143688	exon12	c.A1841G	p.D614G	ACTTGGATGAGAA	.	PASS	Atlas-SNP
ARHGEF4	50649	hgsc.bcm.edu	37	2	131688783	131688783	+	Missense_Mutation	SNP	G	G	A	rs61750360	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	29	96	0	0.402778	0	G|0.866;A|0.134	0.134	strong	.	ARHGEF4	89	.	NM_032995	exon3	c.G253A	p.V85I	GCCCACGTCGAAA	.	PASS	Atlas-SNP
LAMA4	3910	hgsc.bcm.edu	37	6	112430675	112430675	+	Missense_Mutation	SNP	C	C	T	rs142048329		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	3	151	0	0.023622	0	C|1.000;T|0.000	0.000	weak	LAMA4,bladder,carcinoma,0,1	LAMA4	227	1	NM_001105206	exon39	c.G5437A	p.G1813S	CGGCGCCGCTGAC	.	scavenged	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2835985	2835985	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	51	168	0	0.389313	0	.	.	none	.	ARSD	47	.	NM_001669	exon5	c.C723T	p.F241F	AGAGATGAAAAAC	.	PASS	Atlas-SNP
AP5B1	91056	hgsc.bcm.edu	37	11	65547455	65547455	+	Missense_Mutation	SNP	C	C	A	rs12362011	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	30	79	0	0.566038	0	C|0.832;A|0.168	0.168	strong	.	AP5B1	40	.	NM_138368	exon2	c.G509T	p.G170V	AGCAACCCCAGGG	.	PASS	Atlas-SNP
RPL36AL	6166	hgsc.bcm.edu	37	14	50085571	50085571	+	Missense_Mutation	SNP	G	G	A	rs76888601		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	72	183	0	0.48	0	G|0.250;A|0.750	0.750	weak	.	RPL36AL	6	.	NM_001001	exon2	c.A252T	p.Q84H	CTTAATGGCCAGC	.	PASS	Atlas-SNP
SECISBP2L	9728	hgsc.bcm.edu	37	15	49293194	49293194	+	Missense_Mutation	SNP	C	C	A	rs11854184	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	261	251	0	1	0	C|0.860;A|0.140	0.140	strong	.	SECISBP2L	118	.	NM_001193489	exon15	c.G2128T	p.V710L	CTCTTACAGGATC	.	PASS	Atlas-SNP
UBASH3A	53347	hgsc.bcm.edu	37	21	43852232	43852232	+	Silent	SNP	C	C	T	rs13052676	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	59	95	0	0.578431	0	C|0.722;T|0.278	0.278	strong	.	UBASH3A	72	.	NM_018961	exon9	c.C1191T	p.S397S	GAAGAGCGTGCTG	.	PASS	Atlas-SNP
ADAMTSL1	92949	hgsc.bcm.edu	37	9	18829952	18829952	+	Missense_Mutation	SNP	A	A	G	rs41304755	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	36	99	0	0.324324	0	A|0.852;G|0.148	0.148	strong	.	ADAMTSL1	306	.	NM_001040272	exon23	c.A4226G	p.D1409G	TCCTGGATCCTGG	.	PASS	Atlas-SNP
FMO2	2327	hgsc.bcm.edu	37	1	171154959	171154959	+	Missense_Mutation	SNP	A	A	G	rs2020870	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	78	141	0	0.577778	0	A|0.919;G|0.081	0.081	strong	.	FMO2	66	.	NM_001460	exon2	c.A107G	p.D36G	CTGAAGATATTGG	.	PASS	Atlas-SNP
CX3CL1	6376	hgsc.bcm.edu	37	16	57413660	57413660	+	Missense_Mutation	SNP	C	C	T	rs62037084	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	71	118	0	0.563492	0	C|0.996;T|0.004	0.004	strong	CX3CL1,NS,carcinoma,+1,1	CX3CL1	27	1	NM_002996	exon2	c.C185T	p.A62V	AACGCGCAATCAT	.	PASS	Atlas-SNP
TMC7	79905	hgsc.bcm.edu	37	16	19041595	19041595	+	Missense_Mutation	SNP	G	G	A	rs4072393	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	54	136	0	0.432	0	G|0.443;A|0.557	0.557	strong	.	TMC7	75	.	NM_024847	exon6	c.G761A	p.G254E	TTGATGGGGTGAA	.	PASS	Atlas-SNP
PLCB1	23236	hgsc.bcm.edu	37	20	8737734	8737734	+	Silent	SNP	G	G	A	rs2076413	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	51	113	0	0.490385	0	G|0.773;A|0.227	0.227	strong	.	PLCB1	394	.	NM_015192	exon24	c.T2565A	p.P855P	TGAAGCGAGAACG	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45198343	45198343	+	Silent	SNP	C	C	T	rs731790	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	55	104	0	0.482456	0	C|0.925;T|0.075	0.075	strong	.	CDC27	337	.	NM_001114091	exon19	c.G2451A	p.A817A	GTCATCCGCATCT	.	PASS	Atlas-SNP
MED12	9968	hgsc.bcm.edu	37	X	70349947	70349947	+	Silent	SNP	A	A	C	rs5030619	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	221	432	0	0.991031	0	A|0.853;0|0.007	.	strong	.	MED12	984	.	NM_005120	exon28	c.A3930C	p.P1310P	AGACCCAGTGTTG	.	PASS	Atlas-SNP
VSTM1	284415	hgsc.bcm.edu	37	19	54545186	54545186	+	Silent	SNP	C	C	T	rs73058793	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	54	70	0	0.981818	0	C|0.755;T|0.245	0.245	strong	.	VSTM1	30	.	NM_198481	exon7	c.G537A	p.P179P	CTGCTCCGGAAGT	.	PASS	Atlas-SNP
IL17F	112744	hgsc.bcm.edu	37	6	52101844	52101844	+	Missense_Mutation	SNP	T	T	C	rs2397084	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	57	86	0	0.575758	0	T|0.948;C|0.052	0.052	strong	IL17F,NS,carcinoma,+1,2	IL17F	28	2	NM_052872	exon3	c.A377G	p.E126G	AGGGTCTCTTGCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	275	120	239	0	0.436364	0	C|0.737;T|0.263	0.263	strong	.	PDLIM5	76	.	NM_006457	exon5	c.C407T	p.S136F	CTGTGTCTTCACC	.	PASS	Atlas-SNP
DAPK1	1612	hgsc.bcm.edu	37	9	90219920	90219920	+	Silent	SNP	G	G	A	rs36207428	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	52	99	0	0.452174	0	G|0.931;A|0.069	0.069	strong	.	DAPK1	329	.	NM_004938	exon3	c.G114A	p.Q38Q	CCTCCAGTATGCC	.	PASS	Atlas-SNP
TBX6	6911	hgsc.bcm.edu	37	16	30097630	30097630	+	Silent	SNP	C	C	T	rs2289292	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	63	121	0	0.496063	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
MUC16	94025	hgsc.bcm.edu	37	19	9076950	9076950	+	Missense_Mutation	SNP	C	C	A	rs2547076	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	135	259	0	0.498155	0	C|0.750;A|0.250	0.250	strong	.	MUC16	4315	.	NM_024690	exon3	c.G10496T	p.R3499M	TTGGCCCTCAGAG	.	PASS	Atlas-SNP
LRRK2	120892	hgsc.bcm.edu	37	12	40713901	40713901	+	Missense_Mutation	SNP	T	T	A	rs11564148	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	90	91	0	0.989011	0	A|0.266;N|0.000	0.266	strong	.	LRRK2	763	.	NM_198578	exon34	c.T4939A	p.S1647T	TACATGTCACAGT	.	PASS	Atlas-SNP
NME8	51314	hgsc.bcm.edu	37	7	37916455	37916455	+	Silent	SNP	A	A	G	rs62001868	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	43	123	0	0.394495	0	A|0.870;G|0.130	0.130	strong	.	.	.	.	NM_016616	exon12	c.A840G	p.R280R	GGAAAGACAACAT	.	PASS	Atlas-SNP
OR13C5	138799	hgsc.bcm.edu	37	9	107361129	107361129	+	Missense_Mutation	SNP	C	C	T	rs4117966	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	401	182	396	0	0.453865	0	C|0.726;T|0.274	0.274	strong	.	OR13C5	60	.	NM_001004482	exon1	c.G566A	p.C189Y	TCAGCACAGGCCA	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36869516	36869516	+	Missense_Mutation	SNP	C	C	A	rs1205434	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	27	57	0	0.415385	0	C|0.710;A|0.290	0.290	strong	.	KIAA1755	145	.	NM_001029864	exon3	c.G1017T	p.K339N	TTCTGGCTTTGTG	.	PASS	Atlas-SNP
PRDM5	11107	hgsc.bcm.edu	37	4	121738049	121738049	+	Silent	SNP	T	T	C	rs343192	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	92	193	0	0.474227	0	T|0.707;C|0.293	0.293	strong	PRDM5,NS,carcinoma,-2,1	PRDM5	76	1	NM_018699	exon6	c.A681G	p.L227L	CTCCTTTAGACTG	.	PASS	Atlas-SNP
ITPRIP	85450	hgsc.bcm.edu	37	10	106075081	106075081	+	Silent	SNP	G	G	A	rs34043167	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	63	113	0	0.492188	0	G|0.906;A|0.094	0.094	strong	.	ITPRIP	44	.	NM_001272013	exon2	c.C729T	p.I243I	CACCTTGATCTGG	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92086513	92086513	+	Missense_Mutation	SNP	C	C	T	rs10830902	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	47	91	0	0.451923	0	C|0.935;T|0.065	0.065	strong	.	FAT3	1822	.	NM_001008781	exon1	c.C1235T	p.S412F	AATTATCTCCTGG	.	PASS	Atlas-SNP
BUB1	699	hgsc.bcm.edu	37	2	111413444	111413444	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	119	219	1	0.481781	0.00456621	.	.	none	.	BUB1	91	.	NM_004336	exon16	c.G1748C	p.G583A	CGAATACCCCATA	.	PASS	Atlas-SNP
NDUFAF1	51103	hgsc.bcm.edu	37	15	41689166	41689166	+	Missense_Mutation	SNP	C	C	A	rs3204853	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	90	179	0	0.46875	0	C|0.839;A|0.161	0.161	strong	.	NDUFAF1	39	.	NM_016013	exon2	c.G92T	p.R31L	GCAAAGCGAATAC	.	PASS	Atlas-SNP
ZNF772	400720	hgsc.bcm.edu	37	19	57985566	57985566	+	Missense_Mutation	SNP	G	G	C	rs2074060	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	70	125	0	0.463576	0	G|0.353;C|0.646	0.646	strong	.	ZNF772	42	.	NM_001024596	exon5	c.C546G	p.C182W	ACTGAAGCAGAAC	.	PASS	Atlas-SNP
MYH3	4621	hgsc.bcm.edu	37	17	10543463	10543463	+	Silent	SNP	T	T	C	rs2285469	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	424	423	397	0	0.997642	0	T|0.434;C|0.566	0.566	strong	MYH3,colon,carcinoma,-1,1	MYH3	227	1	NM_002470	exon22	c.A2532G	p.A844A	AGTCTCTGCACTC	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124826462	124826462	+	Missense_Mutation	SNP	C	C	T	rs2229840	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	64	127	0	0.457143	0	C|0.859;T|0.141	0.141	strong	.	NCOR2	475	.	NM_006312	exon36	c.G5095A	p.A1699T	TGGCCGCGTTGTG	.	PASS	Atlas-SNP
FOXD4L1	200350	hgsc.bcm.edu	37	2	114256859	114256859	+	Missense_Mutation	SNP	C	C	T	rs2757969		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224	69	303	1	0.308036	0.00330033	.	.	weak	FOXD4L1,NS,malignant_melanoma,0,2	FOXD4L1	48	2	NM_012184	exon1	c.C26T	p.P9L	AGCGCCCTCGCTC	.	scavenged	Atlas-SNP
FAM183A	440585	hgsc.bcm.edu	37	1	43618596	43618596	+	Silent	SNP	G	G	A	rs12074551	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	70	142	0	0.514706	0	G|0.838;A|0.162	0.162	strong	.	FAM183A	28	.	NM_001101376	exon3	c.G291A	p.E97E	CTTAGAGCCCTTG	.	PASS	Atlas-SNP
MEN1	4221	hgsc.bcm.edu	37	11	64572018	64572018	+	Missense_Mutation	SNP	T	T	C	rs2959656	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	101	134	0	1	0	T|0.128;C|0.872	0.872	strong	MEN1,NS,carcinoid-endocrine_tumour,0,1	MEN1	442	1	NM_130800	exon10	c.A1636G	p.T546A	ATGCTGTGGGTGC	.	PASS	Atlas-SNP
OBSL1	23363	hgsc.bcm.edu	37	2	220422126	220422126	+	Silent	SNP	G	G	A	rs375716830		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25	19	22	0	0.76	0	.	.	weak	.	OBSL1	120	.	NM_001173431	exon12	c.C4005T	p.D1335D	CCCAGCGTCCCCG	.	PASS	Atlas-SNP
AMTN	401138	hgsc.bcm.edu	37	4	71396989	71396989	+	Silent	SNP	C	C	T	rs17676820	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	236	263	0	0.995781	0	C|0.684;T|0.316	0.316	strong	AMTN,NS,carcinoma,0,1	AMTN	28	1	NM_212557	exon8	c.C591T	p.I197I	TGCCATCGAGGAA	.	PASS	Atlas-SNP
MGAT5	4249	hgsc.bcm.edu	37	2	135206340	135206340	+	Silent	SNP	C	C	A	rs2230908	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	99	204	0	0.529412	0	C|0.959;A|0.041	0.041	strong	.	MGAT5	84	.	NM_002410	exon16	c.C2148A	p.A716A	AGGCGCCCACCCC	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144993324	144993324	+	Silent	SNP	C	C	T	rs6984820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	51	112	0	0.443478	0	C|0.730;T|0.270	0.270	strong	.	PLEC	1144	.	NM_201380	exon32	c.G11076A	p.T3692T	CACCTGCGTGGTC	.	PASS	Atlas-SNP
OR6A2	8590	hgsc.bcm.edu	37	11	6816875	6816875	+	Missense_Mutation	SNP	G	G	A	rs7122644	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	100	211	0	0.458716	0	G|0.722;A|0.278	0.278	strong	.	OR6A2	68	.	NM_003696	exon1	c.C65T	p.A22V	AGTGGCGCAGGAG	.	PASS	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	37	3	38125705	38125705	+	Silent	SNP	G	G	A	rs7652276	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	58	164	0	0.386667	0	G|0.644;A|0.356	0.356	strong	.	DLEC1	278	.	NM_007337	exon7	c.G1230A	p.P410P	CCTCCCGCCTTCC	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196738365	196738365	+	Missense_Mutation	SNP	T	T	C	rs75859635	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	23	59	0	0.5	0	T|0.967;C|0.033	0.033	strong	.	DNAH7	512	.	NM_018897	exon39	c.A6340G	p.T2114A	TGATTGTTATAAT	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42882620	42882620	+	Silent	SNP	C	C	T	rs17521586	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	30	53	0	0.47619	0	C|0.882;T|0.118	0.118	strong	.	AKAP11	146	.	NM_016248	exon9	c.C5148T	p.T1716T	GTCAACCGAGTCT	.	PASS	Atlas-SNP
PTPN13	5783	hgsc.bcm.edu	37	4	87685796	87685796	+	Missense_Mutation	SNP	T	T	G	rs10033029	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	79	121	0	0.580882	0	T|0.934;G|0.066	0.066	strong	.	PTPN13	203	.	NM_080683	exon25	c.T4068G	p.F1356L	AACTTTTTCTTCA	.	PASS	Atlas-SNP
PTBP1	5725	hgsc.bcm.edu	37	19	804396	804396	+	Silent	SNP	C	C	T	rs3180287	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	16	43	0	0.326531	0	C|0.862;G|0.000;T|0.138	0.138	strong	.	PTBP1	43	.	NM_031990	exon5	c.C393T	p.S131S	GTTCTCCAACCAC	.	PASS	Atlas-SNP
PCDH9	5101	hgsc.bcm.edu	37	13	67800419	67800419	+	Silent	SNP	C	C	G	rs41283952	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	62	152	0	0.446043	0	C|0.970;G|0.030	0.030	strong	.	PCDH9	252	.	NM_203487	exon2	c.G2154C	p.V718V	TCCACTCACTATA	.	PASS	Atlas-SNP
TPTE2	93492	hgsc.bcm.edu	37	13	20006620	20006620	+	Silent	SNP	C	C	T	rs76525011		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	29	182	0	0.130045	0	.	.	weak	TPTE2_ENST00000400230,NS,carcinoma,0,6	TPTE2	225	6	NM_199254	exon17	c.G1215A	p.S405S	ACGAATCGAATAA	.	scavenged	Atlas-SNP
NID1	4811	hgsc.bcm.edu	37	1	236141174	236141174	+	Missense_Mutation	SNP	T	T	C	rs3213190	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	86	157	0	0.485876	0	T|0.706;C|0.293	0.293	strong	.	NID1	196	.	NM_002508	exon20	c.A3737G	p.Q1246R	CATTTCTGTTCGA	.	PASS	Atlas-SNP
ANKRD24	170961	hgsc.bcm.edu	37	19	4216318	4216318	+	Silent	SNP	G	G	T	rs45510899	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	44	73	0	0.423077	0	G|0.948;T|0.052	0.052	strong	ANKRD24_ENST00000318934,NS,NS,0,15	ANKRD24	180	15	NM_133475	exon17	c.G1308T	p.S436S	TCCGTCGGCCCAG	.	PASS	Atlas-SNP
OR2T3	343173	hgsc.bcm.edu	37	1	248637046	248637046	+	Missense_Mutation	SNP	G	G	A	rs148025314	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	623	216	490	1	0.346709	0.00204082	G|0.744;A|0.256	0.256	strong	.	OR2T3	79	.	NM_001005495	exon1	c.G395A	p.C132Y	CTGTTTGCAGACC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	137	236	0	0.57563	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
NUMA1	4926	hgsc.bcm.edu	37	11	71720030	71720030	+	Missense_Mutation	SNP	G	G	A	rs74985106	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	67	166	0	0.478571	0	G|0.982;A|0.018	0.018	strong	.	NUMA1	142	.	NM_006185	exon19	c.C5041T	p.R1681C	GGCTGCGCACCTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	49	99	0	0.422414	0	C|0.777;T|0.223	0.223	strong	.	ZC3HC1	45	.	NM_016478	exon8	c.G1088A	p.R363H	TCAGGACGGTCAA	.	PASS	Atlas-SNP
CD1D	912	hgsc.bcm.edu	37	1	158151892	158151892	+	Silent	SNP	T	T	C	rs140563679	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	291	160	206	0	0.549828	0	T|0.999;C|0.001	0.001	strong	.	CD1D	60	.	NM_001766	exon4	c.T399C	p.H133H	CTTCCATGTAGCA	.	PASS	Atlas-SNP
CCT7	10574	hgsc.bcm.edu	37	2	73478461	73478461	+	Silent	SNP	A	A	T	rs7851	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	63	138	0	0.512195	0	A|0.722;T|0.278	0.278	strong	CCT7,NS,carcinoma,0,1	CCT7	60	1	NM_006429	exon11	c.A1311T	p.A437A	TGGGGCATATGCC	.	PASS	Atlas-SNP
PNLIPRP1	5407	hgsc.bcm.edu	37	10	118368606	118368606	+	Missense_Mutation	SNP	T	T	C	rs1049125	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	80	75	0	0.987654	0	C|0.139;N|0.000	0.139	strong	.	PNLIPRP1	82	.	NM_006229	exon13	c.T1382C	p.L461P	ACACGCTGCTCAC	.	PASS	Atlas-SNP
ZNF780A	284323	hgsc.bcm.edu	37	19	40580545	40580545	+	Nonsense_Mutation	SNP	G	G	A	rs149702621	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	72	192	0	0.455696	0	G|0.999;A|0.001	0.001	strong	ZNF780A_ENST00000455521,NS,carcinoma,0,2	ZNF780A	156	2	NM_001142577	exon6	c.C1807T	p.R603X	GATGTCGAATAAG	.	PASS	Atlas-SNP
MAGEA4	4103	hgsc.bcm.edu	37	X	151092784	151092784	+	Silent	SNP	C	C	T	rs61746135	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	114	213	0	0.991304	0	C|0.979;T|0.021	0.021	strong	.	MAGEA4	68	.	NM_001011548	exon3	c.C648T	p.S216S	CGACAGCGCCTCT	.	PASS	Atlas-SNP
PTPRM	5797	hgsc.bcm.edu	37	18	8069868	8069868	+	Silent	SNP	C	C	T	rs2230601	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	103	127	0	1	0	C|0.517;T|0.483	0.483	strong	.	PTPRM	185	.	NM_001105244	exon8	c.C1317T	p.N439N	AGAAAACTCACAC	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152186614	152186614	+	Silent	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	2476	171	613	1	0.069063	0.00163132	.	.	none	HRNR,NS,carcinoma,0,1	HRNR	403	1	NM_001009931	exon3	c.G7491C	p.S2497S	ACAGCTCGATGAC	.	scavenged	Atlas-SNP
PLCB2	5330	hgsc.bcm.edu	37	15	40589002	40589002	+	Silent	SNP	A	A	G	rs2229691	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	32	61	0	0.516129	0	A|0.697;G|0.303	0.303	strong	.	PLCB2	177	.	NM_004573	exon14	c.T1431C	p.T477T	CCCACCAGTATCC	.	PASS	Atlas-SNP
ADAM12	8038	hgsc.bcm.edu	37	10	127753388	127753388	+	Silent	SNP	C	C	T	rs2279091	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	27	83	0	0.409091	0	C|0.908;T|0.092	0.092	strong	.	ADAM12	388	.	NM_021641	exon14	c.G1605A	p.T535T	CCAGAGCGTGACA	.	PASS	Atlas-SNP
GUCA1C	9626	hgsc.bcm.edu	37	3	108634973	108634973	+	Splice_Site	SNP	C	C	A	rs10933973	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	83	172	0	0.425641	0	C|0.727;A|0.273	0.273	strong	.	GUCA1C	39	.	NM_005459	exon4	c.442+1G>T	.	CCATTACCATCAT	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225142710	225142710	+	Missense_Mutation	SNP	A	A	T	rs41267347	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	68	200	0	0.427673	0	A|0.950;T|0.050	0.050	strong	.	DNAH14	300	.	NM_144989	exon3	c.A127T	p.T43S	TTAGAGACTCAAC	.	PASS	Atlas-SNP
IL17RC	84818	hgsc.bcm.edu	37	3	9970062	9970062	+	Silent	SNP	C	C	T	rs151110374	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	10	42	0	0.333333	0	C|0.999;T|0.001	0.001	strong	.	IL17RC	55	.	NM_153461	exon11	c.C1164T	p.D388D	GCTGGACGCACCG	.	PASS	Atlas-SNP
PRPS1L1	221823	hgsc.bcm.edu	37	7	18066569	18066569	+	Missense_Mutation	SNP	C	C	A	rs3800962	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	95	219	0	0.479798	0	C|0.709;A|0.291	0.291	strong	.	PRPS1L1	90	.	NM_175886	exon1	c.G837T	p.E279D	CATCTTCTCATCT	.	PASS	Atlas-SNP
SEMA3E	9723	hgsc.bcm.edu	37	7	83037751	83037751	+	Silent	SNP	C	C	A	rs2722985	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	225	178	0	0.986842	0	C|0.504;A|0.496	0.496	strong	.	SEMA3E	125	.	NM_012431	exon6	c.G603T	p.A201A	GAAGATCGCAGCG	.	PASS	Atlas-SNP
SLC35F4	341880	hgsc.bcm.edu	37	14	58060707	58060707	+	Missense_Mutation	SNP	T	T	C	rs145246618	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	94	231	0	0.505376	0	T|0.997;C|0.003	0.003	strong	SLC35F4_ENST00000339762,right_upper_lobe,carcinoma,0,2	SLC35F4	105	2	NM_001206920	exon2	c.A239G	p.Q80R	GATCCTTGGTTTT	.	PASS	Atlas-SNP
PCDHA9	9752	hgsc.bcm.edu	37	5	140228164	140228164	+	Missense_Mutation	SNP	C	C	A	rs251353	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	137	204	0	0.608889	0	C|0.554;A|0.446	0.446	strong	.	PCDHA9	373	.	NM_031857	exon1	c.C84A	p.S28R	GGGGAGCGGCCAG	.	PASS	Atlas-SNP
MORC2	22880	hgsc.bcm.edu	37	22	31342376	31342376	+	Silent	SNP	G	G	C	rs2072132	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	86	157	0	0.443299	0	G|0.676;C|0.324	0.324	strong	.	MORC2	78	.	NM_014941	exon7	c.C192G	p.T64T	GAGGCAGGTCATG	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957583	111957583	+	Missense_Mutation	SNP	A	A	G	rs1126656	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	84	196	0	0.988235	0	A|0.800;G|0.200	0.200	strong	.	OVGP1	177	.	NM_002557	exon11	c.T1540C	p.Y514H	ACTGATAACCCAC	.	PASS	Atlas-SNP
ARMC4	55130	hgsc.bcm.edu	37	10	28228865	28228865	+	Silent	SNP	A	A	G	rs7893462	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	60	147	0	0.434783	0	A|0.488;G|0.512	0.512	strong	.	ARMC4	177	.	NM_018076	exon14	c.T2058C	p.N686N	CTGCTCATTCTCA	.	PASS	Atlas-SNP
MLIP	90523	hgsc.bcm.edu	37	6	54054686	54054686	+	Missense_Mutation	SNP	T	T	A	rs6934690	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	116	128	0	0.991453	0	T|0.177;A|0.823	0.823	strong	.	MLIP	84	.	NM_138569	exon9	c.T958A	p.S320T	TCACCATCTTCTA	.	PASS	Atlas-SNP
QSOX1	5768	hgsc.bcm.edu	37	1	180159654	180159654	+	Silent	SNP	C	C	T	rs7521513	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	98	137	0	0.576471	0	C|0.863;T|0.137	0.137	strong	.	QSOX1	79	.	NM_002826	exon10	c.C1227T	p.V409V	GTGGGTCCTCTTC	.	PASS	Atlas-SNP
TAF4B	6875	hgsc.bcm.edu	37	18	23854692	23854692	+	Silent	SNP	C	C	T	rs17224558	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	68	153	0	0.535433	0	C|0.875;T|0.125	0.125	strong	.	TAF4B	71	.	NM_005640	exon4	c.C663T	p.T221T	AACTACCCTGAAG	.	PASS	Atlas-SNP
KLC3	147700	hgsc.bcm.edu	37	19	45848869	45848869	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	59	141	0	0.443609	0	.	.	none	.	KLC3	37	.	NM_177417	exon2	c.G70A	p.V24M	GAGCTGGTGCGGC	.	PASS	Atlas-SNP
PDIA5	10954	hgsc.bcm.edu	37	3	122880191	122880191	+	Silent	SNP	T	T	C	rs8935	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	61	98	0	0.616162	0	C|0.276;T|0.724	0.276	strong	.	PDIA5	66	.	NM_006810	exon16	c.T1368C	p.C456C	TGACTGTGTCAAA	.	PASS	Atlas-SNP
EML6	400954	hgsc.bcm.edu	37	2	55189685	55189685	+	Silent	SNP	C	C	T	rs75479836	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	48	110	0	0.457143	0	C|0.952;T|0.048	0.048	strong	EML6,NS,carcinoma,+2,1	EML6	85	1	NM_001039753	exon35	c.C4995T	p.D1665D	CAAAGACGGAGAA	.	PASS	Atlas-SNP
NFYC	4802	hgsc.bcm.edu	37	1	41204569	41204569	+	Silent	SNP	C	C	T	rs1057925	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	124	106	0	0.992	0	C|0.485;T|0.515	0.515	strong	.	NFYC	39	.	NM_001142587	exon2	c.C54T	p.S18S	GCAAAGCCTACAG	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47545823	47545823	+	Silent	SNP	G	G	A	rs13052956	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	177	208	0	0.972527	0	G|0.578;A|0.422	0.422	strong	.	COL6A2	351	.	NM_058175	exon26	c.G2094A	p.A698A	GATTGCGGGCGGC	.	PASS	Atlas-SNP
LRP4	4038	hgsc.bcm.edu	37	11	46898771	46898771	+	Missense_Mutation	SNP	T	T	C	rs6485702	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	43	118	0	0.425743	0	T|0.523;C|0.477	0.477	strong	LRP4,NS,carcinoma,0,1	LRP4	160	1	NM_002334	exon23	c.A3256G	p.I1086V	CTCCAATGGCAAT	.	PASS	Atlas-SNP
SCD	6319	hgsc.bcm.edu	37	10	102116311	102116311	+	Missense_Mutation	SNP	A	A	C	rs2234970	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	111	199	1	0.5311	0.00502513	A|0.604;C|0.396	0.396	strong	.	SCD	25	.	NM_005063	exon5	c.A670C	p.M224L	TTGCTGATGATGT	.	PASS	Atlas-SNP
ELOVL3	83401	hgsc.bcm.edu	37	10	103988265	103988265	+	Missense_Mutation	SNP	G	G	A	rs36103207	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	290	138	284	1	0.475862	0.00352113	G|0.970;A|0.030	0.030	strong	.	ELOVL3	39	.	NM_152310	exon3	c.G325A	p.D109N	TTCATCGATAATT	.	PASS	Atlas-SNP
PCDHA12	56137	hgsc.bcm.edu	37	5	140255792	140255792	+	Silent	SNP	C	C	A	rs251377	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	64	93	0	0.64	0	C|0.560;A|0.440	0.440	strong	.	PCDHA12	196	.	NM_018903	exon1	c.C735A	p.P245P	TAAGCCCAGCTAT	.	PASS	Atlas-SNP
APMAP	57136	hgsc.bcm.edu	37	20	24964558	24964558	+	Missense_Mutation	SNP	T	T	C	rs12242	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	30	53	0	0.508475	0	T|0.964;C|0.036	0.036	strong	.	APMAP	3	.	NM_020531	exon2	c.A193G	p.I65V	GATCTATAGGAGA	.	PASS	Atlas-SNP
TDG	6996	hgsc.bcm.edu	37	12	104380734	104380734	+	Missense_Mutation	SNP	G	G	A	rs2888805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	16	88	0	0.347826	0	G|0.908;A|0.092	0.092	strong	.	TDG	43	.	NM_003211	exon10	c.G1099A	p.V367M	GAGAGCGTGGAGT	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2833643	2833643	+	Missense_Mutation	SNP	C	C	A	rs115332247	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	22	124	0	0.25	0	.	.	strong	.	ARSD	47	.	NM_001669	exon6	c.G954T	p.Q318H	GCCATGCTGACTT	.	PASS	Atlas-SNP
IGSF22	283284	hgsc.bcm.edu	37	11	18728650	18728650	+	Missense_Mutation	SNP	T	T	C	rs2289965	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	29	47	0	0.517857	0	T|0.800;C|0.200	0.200	strong	.	IGSF22	211	.	NM_173588	exon21	c.A3391G	p.I1131V	TGATGATGTAGTG	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	37	6	26468545	26468545	+	Missense_Mutation	SNP	G	G	C	rs78126484		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	508	238	361	0	0.468504	0	.	.	weak	BTN2A1_ENST00000265424,NS,carcinoma,-1,2	BTN2A1	118	2	NM_007049	exon8	c.G1352C	p.G451A	GGGTGGGCGTCTT	.	PASS	Atlas-SNP
PRDM7	11105	hgsc.bcm.edu	37	16	90130136	90130136	+	Missense_Mutation	SNP	C	C	T	rs2078478	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	145	284	0	0.525362	0	C|0.693;T|0.307	0.307	strong	.	PRDM7	53	.	NM_001098173	exon5	c.G392A	p.R131K	AATTCTCTCAAAC	.	PASS	Atlas-SNP
UGT1A9	54600	hgsc.bcm.edu	37	2	234580967	234580967	+	Silent	SNP	A	A	G	rs76359435	bycluster;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	4	117	0	0.0336134	0	.	.	alt	UGT1A9,colon,carcinoma,0,1	UGT1A9	79	1	NM_021027	exon1	c.A387G	p.K129K	GTTTAAAGACAAA	.	scavenged	Atlas-SNP
ME3	10873	hgsc.bcm.edu	37	11	86153911	86153911	+	Silent	SNP	G	G	A	rs7548	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	31	66	0	0.449275	0	G|0.594;T|0.036	.	strong	ME3,NS,carcinoma,0,1	ME3	70	1	NM_006680	exon14	c.C1605T	p.Y535Y	TGGTGGGTAGAGT	.	PASS	Atlas-SNP
OSTN	344901	hgsc.bcm.edu	37	3	190936577	190936577	+	Silent	SNP	A	A	G	rs34687554	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	29	78	0	0.426471	0	A|0.992;G|0.008	0.008	strong	.	OSTN	25	.	NM_198184	exon2	c.A144G	p.T48T	ACCCACAGTCAGG	.	PASS	Atlas-SNP
NPBWR2	2832	hgsc.bcm.edu	37	20	62737568	62737568	+	Missense_Mutation	SNP	T	T	C	rs4809401	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	50	113	0	0.458716	0	T|0.908;C|0.092	0.092	strong	NPBWR2,NS,carcinoma,0,1	NPBWR2	36	1	NM_005286	exon1	c.A617G	p.Q206R	CAGACCTGCTCGG	.	PASS	Atlas-SNP
UGT2B15	7366	hgsc.bcm.edu	37	4	69536084	69536084	+	Missense_Mutation	SNP	A	A	C	rs1902023	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	819	817	683	1	0.997558	0.00146413	A|0.468;C|0.532	0.532	strong	.	UGT2B15	48	.	NM_001076	exon1	c.T253G	p.Y85D	CCAAATAATTTTT	.	PASS	Atlas-SNP
KIF26B	55083	hgsc.bcm.edu	37	1	245772692	245772692	+	Silent	SNP	A	A	C	rs61755865	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	102	223	0	0.447368	0	A|0.970;C|0.030	0.030	strong	.	KIF26B	343	.	NM_018012	exon8	c.A1776C	p.S592S	TTTCTCAGTCCGG	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33660597	33660597	+	Silent	SNP	C	C	T	rs2229643	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	373	193	349	0	0.517426	0	A|0.000;C|0.953;T|0.047	0.047	strong	.	ITPR3	409	.	NM_002224	exon55	c.C7551T	p.I2517I	AATCATCGACACC	.	PASS	Atlas-SNP
PTPRJ	5795	hgsc.bcm.edu	37	11	48145397	48145397	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	53	103	0	0.40458	0	.	.	none	.	PTPRJ	225	.	NM_001098503	exon5	c.C849A	p.D283E	GGGAGACCCCTTG	.	PASS	Atlas-SNP
HS3ST1	9957	hgsc.bcm.edu	37	4	11401012	11401012	+	Silent	SNP	A	A	G	rs1047385	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	45	88	0	0.445545	0	G|0.240;N|0.000	0.240	strong	.	HS3ST1	41	.	NM_005114	exon2	c.T618C	p.F206F	CGGGAAAAAGCGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	25	52	0	0.568182	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
PCDHA1	56147	hgsc.bcm.edu	37	5	140168070	140168070	+	Missense_Mutation	SNP	A	A	G	rs2240696	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	84	295	0	0.330709	0	A|0.482;G|0.518	0.518	strong	PCDHA1_ENST00000504120,colon,carcinoma,0,2	PCDHA1	387	2	NM_031410	exon1	c.A2195G	p.Y732C	GTGCGTATGTGCC	.	PASS	Atlas-SNP
LAMTOR2	28956	hgsc.bcm.edu	37	1	156025096	156025096	+	Silent	SNP	C	C	T	rs7541	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	59	72	0	0.584158	0	C|0.895;T|0.105	0.105	strong	.	LAMTOR2	13	.	NM_001145264	exon2	c.C111T	p.Y37Y	TGGTTACGGGGAC	.	PASS	Atlas-SNP
RGPD3	653489	hgsc.bcm.edu	37	2	107040564	107040564	+	Missense_Mutation	SNP	C	C	T	rs55993306	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	714	611	244	0	0.855742	0	C|0.847;T|0.153	0.153	strong	RGPD3_ENST00000304514,NS,carcinoma,0,2	RGPD3	316	2	NM_001144013	exon20	c.G3859A	p.E1287K	TTGACTCATCAAA	.	PASS	Atlas-SNP
PEAK1	0	hgsc.bcm.edu	37	15	77450964	77450964	+	Missense_Mutation	SNP	C	C	T	rs12909704	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	101	161	0	0.510101	0	C|0.760;T|0.240	0.240	strong	.	.	.	.	NM_024776	exon6	c.G3212A	p.R1071K	CAGCCCCTGCCAT	.	PASS	Atlas-SNP
LPCAT1	79888	hgsc.bcm.edu	37	5	1494935	1494935	+	Missense_Mutation	SNP	T	T	C	rs28715640	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	30	51	0	0.612245	0	T|0.954;C|0.046	0.046	strong	.	LPCAT1	70	.	NM_024830	exon3	c.A373G	p.T125A	CCTCGGTGGGCAG	.	PASS	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160729005	160729005	+	Missense_Mutation	SNP	C	C	T	rs1397706	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	74	139	0	0.480519	0	C|0.885;T|0.115	0.115	strong	.	LY75	151	.	NM_002349	exon13	c.G2074A	p.D692N	TTTCATCCACATG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505859	195505859	+	Missense_Mutation	SNP	T	T	C	rs151339448	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	42	238	17	0.204878	0.0714286	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.A12592G	p.T4198A	AGGAAGTGTCGGT	.	scavenged	Atlas-SNP
CDSN	1041	hgsc.bcm.edu	37	6	31085226	31085226	+	Missense_Mutation	SNP	G	G	A	rs7742033	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	107	155	0	0.607955	0	G|0.979;A|0.021	0.021	strong	.	CDSN	48	.	NM_001264	exon2	c.C166T	p.L56F	CAGTGAGGCAGGG	.	PASS	Atlas-SNP
ROCK2	9475	hgsc.bcm.edu	37	2	11359120	11359120	+	Missense_Mutation	SNP	G	G	T	rs2230774	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	288	142	258	1	0.493056	0.00387597	T|0.320;G|0.373;C|0.181;N|0.000;A|0.127	0.320	strong	ROCK2_ENST00000315872,NS,carcinoma,0,1	ROCK2	224	1	NM_004850	exon10	c.C1292A	p.T431N	GAATCAGTTTCTC	.	PASS	Atlas-SNP
HK1	3098	hgsc.bcm.edu	37	10	71103597	71103597	+	Silent	SNP	C	C	G	rs1133189	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	111	96	0	0.982301	0	C|0.651;G|0.349	0.349	strong	.	HK1	170	.	NM_033498	exon5	c.C90G	p.L30L	GTATCTCTATGCC	.	PASS	Atlas-SNP
STK36	27148	hgsc.bcm.edu	37	2	219553468	219553468	+	Missense_Mutation	SNP	C	C	T	rs16859180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	315	163	323	0	0.51746	0	C|0.953;T|0.047	0.047	strong	.	STK36	111	.	NM_015690	exon12	c.C1429T	p.R477W	GCATTCCGGGTCC	.	PASS	Atlas-SNP
DCAF4L1	285429	hgsc.bcm.edu	37	4	41984118	41984118	+	Silent	SNP	C	C	T	rs2660320	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	113	213	0	0.543269	0	C|0.375;T|0.625	0.625	strong	.	DCAF4L1	70	.	NM_001029955	exon1	c.C309T	p.S103S	CATCAGCCTGCGA	.	PASS	Atlas-SNP
DGKI	9162	hgsc.bcm.edu	37	7	137150761	137150761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	4	104	0	0.0408163	0	.	.	none	.	DGKI	335	.	NM_004717	exon27	c.G2529A	p.M843I	AATCTCCATCACA	.	PASS	Atlas-SNP
ARMS2	387715	hgsc.bcm.edu	37	10	124214355	124214355	+	Nonsense_Mutation	SNP	C	C	T	rs2736911	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	205	220	1	0.971564	0.00454545	C|0.869;T|0.131	0.131	strong	ARMS2_ENST00000528446,NS,carcinoma,-1,1	ARMS2	7	1	NM_001099667	exon1	c.C112T	p.R38X	ACTCTGCGAGAGT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507365	195507365	+	Missense_Mutation	SNP	G	G	A	rs75737861	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	168	23	0	0.815534	0	G|0.537;A|0.463	0.463	strong	.	MUC4	1505	.	NM_018406	exon2	c.C11086T	p.P3696S	GAAGAGGGGTGGC	.	PASS	Atlas-SNP
SNX13	23161	hgsc.bcm.edu	37	7	17879553	17879553	+	Silent	SNP	G	G	A	rs12720473	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	33	102	0	0.428571	0	G|0.957;A|0.043	0.043	strong	.	SNX13	113	.	NM_015132	exon13	c.C1236T	p.T412T	TTGGGCGGTAACC	.	PASS	Atlas-SNP
GPR116	221395	hgsc.bcm.edu	37	6	46832813	46832813	+	Silent	SNP	G	G	A	rs614826	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	89	185	0	0.402715	0	G|0.472;A|0.528	0.528	strong	.	GPR116	133	.	NM_015234	exon14	c.C1956T	p.V652V	GCTCCAGACTGAA	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47545826	47545826	+	Silent	SNP	C	C	T	rs13046639	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	180	207	0	0.972973	0	C|0.584;T|0.416	0.416	strong	.	COL6A2	351	.	NM_058175	exon26	c.C2097T	p.G699G	TGCGGGCGGCACC	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151962265	151962265	+	Missense_Mutation	SNP	C	C	T	rs201834857		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	348	19	313	0	0.0545977	0	.	.	weak	MLL3_ENST00000355193,trunk,malignant_melanoma,0,2	MLL3	1564	2	NM_170606	exon8	c.G1042A	p.D348N	GGCTGTCGCACAC	.	scavenged	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81249954	81249954	+	Missense_Mutation	SNP	T	T	A	rs7191351	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	50	58	0	0.561798	0	A|0.526;N|0.001	0.526	strong	.	PKD1L2	361	.	NM_001076780	exon2	c.A359T	p.Q120L	GCGGCCTGCCCTC	.	PASS	Atlas-SNP
TMEM132D	121256	hgsc.bcm.edu	37	12	129566406	129566406	+	Silent	SNP	C	C	T	rs79031518	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	107	229	0	0.529703	0	C|0.912;T|0.088	0.088	strong	.	TMEM132D	299	.	NM_133448	exon7	c.G1821A	p.T607T	CAGCTCCGTGATG	.	PASS	Atlas-SNP
TUBB1	81027	hgsc.bcm.edu	37	20	57599402	57599402	+	Missense_Mutation	SNP	G	G	A	rs6070697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	48	70	0	0.551724	0	G|0.852;A|0.148	0.148	strong	.	TUBB1	42	.	NM_030773	exon4	c.G920A	p.R307H	TCCGCCGTGGCCG	.	PASS	Atlas-SNP
ND6	0	hgsc.bcm.edu	37	MT	14587	14587	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	65	61	0	0.970149	0	.	.	none	.	.	.	.	ENST00000361681	exon1	c.T87C	p.G29G	TACTAAACCCCCA	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155410909	155410909	+	Silent	SNP	A	A	G	rs35172627	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	130	134	0	1	0	A|0.843;G|0.157	0.157	strong	.	DCHS2	594	.	NM_001142552	exon1	c.T1599C	p.N533N	TTGGTCATTGAGG	.	PASS	Atlas-SNP
CXCR7	57007	hgsc.bcm.edu	37	2	237489904	237489904	+	Silent	SNP	C	C	T	rs1045879	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	92	124	0	0.531792	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
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057391	46057391	+	Silent	SNP	A	A	G	rs9306108	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	90	203	0	0.529412	0	A|0.648;G|0.352	0.352	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.A57G	p.V19V	GCGGGTAGTCGAC	.	PASS	Atlas-SNP
FBLN2	2199	hgsc.bcm.edu	37	3	13670508	13670508	+	Silent	SNP	G	G	A	rs41283996	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	179	248	0	0.625874	0	G|0.943;A|0.057	0.057	strong	FBLN2_ENST00000492059,NS,lymphoid_neoplasm,+2,4	FBLN2	137	4	NM_001004019	exon12	c.G2673A	p.A891A	CTGCGCGCGCGGC	.	PASS	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130776613	130776613	+	Silent	SNP	A	A	G	rs4373936	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	81	75	0	0.987805	0	A|0.375;G|0.625	0.625	strong	.	SNX19	84	.	NM_014758	exon6	c.T2169C	p.S723S	CAGCCTAGACCTG	.	PASS	Atlas-SNP
SIGLEC7	27036	hgsc.bcm.edu	37	19	51656454	51656454	+	Silent	SNP	A	A	T	rs273662	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	142	135	0	0.993007	0	A|0.203;T|0.797	0.797	strong	SIGLEC7,NS,carcinoma,0,1	SIGLEC7	74	1	NM_014385	exon7	c.A1356T	p.G452G	ATCAGGACAAGAA	.	PASS	Atlas-SNP
FAM154A	158297	hgsc.bcm.edu	37	9	18950895	18950895	+	Missense_Mutation	SNP	T	T	C	rs7021572	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	88	237	0	0.425121	0	T|0.486;C|0.514	0.514	strong	.	FAM154A	61	.	NM_153707	exon2	c.A79G	p.K27E	CTGTTTTATCATA	.	PASS	Atlas-SNP
MARCH2	51257	hgsc.bcm.edu	37	19	8486884	8486884	+	Missense_Mutation	SNP	G	G	A	rs1133893	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	46	44	0	0.978723	0	T|0.034;G|0.603;C|0.163;A|0.200	0.200	strong	MARCH2,NS,carcinoma,0,1	MARCH2	17	1	NM_001005415	exon2	c.G160A	p.A54T	ATCCGTGCCTTGG	.	PASS	Atlas-SNP
SASS6	163786	hgsc.bcm.edu	37	1	100575933	100575933	+	Missense_Mutation	SNP	G	G	A	rs13375867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	226	275	0	0.995595	0	G|0.659;A|0.341	0.341	strong	.	SASS6	61	.	NM_194292	exon8	c.C776T	p.A259V	TTAGCCGCTTCTA	.	PASS	Atlas-SNP
ADAM20	8748	hgsc.bcm.edu	37	14	70990398	70990398	+	Silent	SNP	G	G	A	rs10162314	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	49	104	0	0.505155	0	G|0.943;A|0.057	0.057	strong	.	ADAM20	59	.	NM_003814	exon2	c.C1227T	p.C409C	TAGCTCGCACACA	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	37	1	42046613	42046613	+	Silent	SNP	G	G	T	rs12132697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	32	106	0	0.313726	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
RPE65	6121	hgsc.bcm.edu	37	1	68903942	68903942	+	Silent	SNP	C	C	T	rs12145904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	15	79	0	0.245902	0	C|0.815;T|0.185	0.185	strong	RPE65,NS,carcinoma,-2,1	RPE65	87	1	NM_000329	exon10	c.G1056A	p.E352E	TTTCACCTCTTCC	.	PASS	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28619911	28619911	+	Silent	SNP	T	T	C	rs1126447	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	629	184	183	1	0.292528	0.00546448	T|0.716;C|0.284	0.284	strong	SULT1A1,NS,carcinoma,0,1	SULT1A1	53	1	NM_177534	exon2	c.A162G	p.V54V	CTGGCTTACCCAG	.	scavenged	Atlas-SNP
C7orf71	285941	hgsc.bcm.edu	37	7	26685934	26685934	+	Silent	SNP	T	T	C	rs12671270	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	40	92	0	0.425532	0	C|0.305;N|0.000	0.305	strong	.	C7orf71	6	.	NM_001145531	exon4	c.T285C	p.C95C	CGCATGTGGGACT	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957570	111957570	+	Missense_Mutation	SNP	G	G	C	rs45455292	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	53	194	0	0.84127	0	G|0.853;C|0.147	0.147	strong	.	OVGP1	177	.	NM_002557	exon11	c.C1553G	p.T518S	CCAGGGGTCACAG	.	PASS	Atlas-SNP
TRIM16	10626	hgsc.bcm.edu	37	17	15554504	15554504	+	Silent	SNP	G	G	A	rs4792642	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	87	133	0	0.527273	0	G|0.746;A|0.254	0.254	strong	.	TRIM16	45	.	NM_006470	exon4	c.C420T	p.A140A	GCAGAAGGCAGAC	.	PASS	Atlas-SNP
PIFO	128344	hgsc.bcm.edu	37	1	111891170	111891170	+	Missense_Mutation	SNP	A	A	C	rs15396	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	60	117	0	0.618557	0	A|0.957;C|0.043	0.043	strong	.	.	.	.	NM_181643	exon4	c.A291C	p.K97N	CCAGAAAGTAAGT	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549588	32549588	+	Missense_Mutation	SNP	G	G	A	rs201929247	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	337	32	167	0	0.0949555	0	G|0.940;A|0.060	0.060	strong	.	HLA-DRB1	41	.	NM_002124	exon3	c.C398T	p.S133L	GTCTTTGAAGGAT	.	PASS	Atlas-SNP
SIPA1L2	57568	hgsc.bcm.edu	37	1	232568041	232568041	+	Missense_Mutation	SNP	G	G	A	rs1547742	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	80	134	0	0.516129	0	G|0.931;A|0.069	0.069	strong	SIPA1L2,colon,carcinoma,0,1	SIPA1L2	218	1	NM_020808	exon14	c.C4208T	p.S1403L	CCCTCCGATTTCT	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81249927	81249927	+	Missense_Mutation	SNP	C	C	T	rs7185774	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	48	59	0	0.551724	0	C|0.772;T|0.228	0.228	strong	.	PKD1L2	361	.	NM_001076780	exon2	c.G386A	p.G129D	ATGTGGCCGCAGG	.	PASS	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	37	2	15674686	15674686	+	Missense_Mutation	SNP	T	T	C	rs13029846	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	69	192	0	0.413174	0	T|0.508;C|0.492	0.492	strong	.	NBAS	246	.	NM_015909	exon9	c.A727G	p.I243V	GGTAAATAGCTGT	.	PASS	Atlas-SNP
C3orf17	25871	hgsc.bcm.edu	37	3	112727184	112727184	+	Missense_Mutation	SNP	A	A	T	rs2306857	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	93	100	0	1	0	A|0.415;T|0.585	0.585	strong	.	C3orf17	37	.	NM_015412	exon8	c.T1069A	p.F357I	GCACAAAACTTTT	.	PASS	Atlas-SNP
C4orf40	401137	hgsc.bcm.edu	37	4	71024099	71024099	+	Missense_Mutation	SNP	A	A	G	rs1612460	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	156	161	1	0.993631	0.00621118	A|0.927;C|0.007;G|0.066	0.066	strong	.	C4orf40	19	.	NM_214711	exon3	c.A130G	p.I44V	TATGGCATACGGA	.	PASS	Atlas-SNP
ICAM5	7087	hgsc.bcm.edu	37	19	10402938	10402938	+	Missense_Mutation	SNP	G	G	A	rs1056538	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	45	41	0	0.978261	0	G|0.719;A|0.281	0.281	strong	.	ICAM5	53	.	NM_003259	exon4	c.G901A	p.V301I	CAGCTGGTCTGCA	.	PASS	Atlas-SNP
SLCO4C1	353189	hgsc.bcm.edu	37	5	101631790	101631790	+	Silent	SNP	T	T	G	rs10479190	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	57	132	0	0.445312	0	T|0.830;G|0.170	0.170	strong	.	SLCO4C1	113	.	NM_180991	exon1	c.A177C	p.P59P	TGGCTCTGGTGAC	.	PASS	Atlas-SNP
GCLC	2729	hgsc.bcm.edu	37	6	53387230	53387230	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	12	74	0	0.131868	0	.	.	none	.	GCLC	58	.	NM_001197115	exon2	c.G246A	p.G82G	CCTTTCCCCCTTC	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17083782	17083782	+	Missense_Mutation	SNP	A	A	C	rs200844502	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	444	240	376	0	0.540541	0	A|0.972;C|0.029	0.029	strong	Q13209_HUMAN,NS,carcinoma,0,2	.	.	2	NM_001271733	exon15	c.T2015G	p.F672C	CGCGTGAAGACGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	108	150	0	0.524272	0	A|0.904;T|0.096	0.096	strong	.	SVEP1	326	.	NM_153366	exon24	c.T3988A	p.L1330M	TGCACAAGAATCC	.	PASS	Atlas-SNP
PLXNC1	10154	hgsc.bcm.edu	37	12	94543506	94543506	+	Silent	SNP	C	C	T	rs2230754	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	29	19	30	0	0.655172	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
DPM2	8818	hgsc.bcm.edu	37	9	130698029	130698029	+	Missense_Mutation	SNP	G	G	C	rs7997	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	59	125	0	0.464567	0	G|0.241;C|0.759	0.759	strong	.	DPM2	6	.	NM_003863	exon4	c.C227G	p.T76S	CTCTTGGTCTTCA	.	PASS	Atlas-SNP
ANK2	287	hgsc.bcm.edu	37	4	114278277	114278277	+	Missense_Mutation	SNP	C	C	T	rs3733617	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	66	178	0	0.461538	0	C|0.831;T|0.169	0.169	strong	.	ANK2	576	.	NM_001148	exon38	c.C8503T	p.P2835S	GAATCTCCACAAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	73	211	1	0.489933	0.00473934	A|0.479;G|0.521	0.521	strong	.	C9orf96	77	.	NM_153710	exon14	c.A1417G	p.K473E	TCCCTCAAAAGCA	.	PASS	Atlas-SNP
PCDHA11	56138	hgsc.bcm.edu	37	5	140250252	140250252	+	Silent	SNP	T	T	C	rs251372	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	26	14	89	0	0.538462	0	T|0.571;C|0.429	0.429	strong	.	PCDHA11	209	.	NM_018902	exon1	c.T1564C	p.L522L	CAGCCGTTGGACC	.	PASS	Atlas-SNP
ZNF792	126375	hgsc.bcm.edu	37	19	35449082	35449082	+	Silent	SNP	G	G	A	rs3746243	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	130	140	0	1	0	G|0.769;A|0.231	0.231	strong	.	ZNF792	46	.	NM_175872	exon4	c.C1677T	p.D559D	AGGCCTGTCTGGT	.	PASS	Atlas-SNP
NIN	51199	hgsc.bcm.edu	37	14	51202311	51202311	+	Missense_Mutation	SNP	G	G	C	rs2295847	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	37	79	0	0.440476	0	G|0.873;C|0.127	0.127	strong	.	NIN	475	.	NM_020921	exon28	c.C5800G	p.Q1934E	ATTCTTGTTCAAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512118	195512118	+	Silent	SNP	G	G	A	rs199976782	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	590	85	341	0	0.144068	0	G|0.996;A|0.004	0.004	weak	MUC4_ENST00000463781,bladder,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C6333T	p.T2111T	AAGAGCGGTGGCG	.	PASS	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115389366	115389366	+	Missense_Mutation	SNP	G	G	A	rs2286735	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	44	100	0	0.511628	0	G|0.726;N|0.001	.	strong	.	NRAP	208	.	NM_001261463	exon19	c.C2021T	p.A674V	CCATAGGCCTTCT	.	PASS	Atlas-SNP
GRK6	2870	hgsc.bcm.edu	37	5	176863519	176863519	+	Silent	SNP	G	G	C	rs1130857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	58	62	0	1	0	G|0.531;C|0.469	0.469	strong	.	GRK6	48	.	NM_002082	exon13	c.G1392C	p.P464P	GCCGCCGTTCAAG	.	PASS	Atlas-SNP
GIP	2695	hgsc.bcm.edu	37	17	47039132	47039132	+	Missense_Mutation	SNP	T	T	C	rs2291725	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	19	56	0	0.5	0	T|0.575;C|0.425	0.425	strong	GIP,NS,carcinoma,0,1	GIP	15	1	NM_004123	exon4	c.A307G	p.S103G	CTTGACTGGCCAG	.	PASS	Atlas-SNP
TSPAN3	10099	hgsc.bcm.edu	37	15	77344793	77344793	+	Silent	SNP	T	T	A	rs11737	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	61	119	0	0.465649	0	T|0.433;A|0.567	0.567	strong	.	TSPAN3	21	.	NM_005724	exon6	c.A603T	p.V201V	CTTCACTACTAGA	.	PASS	Atlas-SNP
CYP1A2	1544	hgsc.bcm.edu	37	15	75047426	75047426	+	Silent	SNP	C	C	T	rs2470890	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	23	21	0	0.560976	0	C|0.616;T|0.384	0.384	strong	.	CYP1A2	70	.	NM_000761	exon7	c.C1548T	p.N516N	CATCAACTGAAGA	.	PASS	Atlas-SNP
SLC25A37	51312	hgsc.bcm.edu	37	8	23423758	23423758	+	Silent	SNP	G	G	A	rs10992	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	79	134	0	0.487654	0	G|0.520;A|0.480	0.480	strong	SLC25A37,caecum,carcinoma,+2,1	SLC25A37	27	1	NM_016612	exon2	c.G348A	p.P116P	AGGGCCGGCCCAT	.	PASS	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	96	150	0	0.470588	0	C|0.589;A|0.002	.	strong	.	C11orf24	35	.	NM_022338	exon4	c.G448A	p.A150T	AGGCTGCAGTCGT	.	PASS	Atlas-SNP
FANCI	55215	hgsc.bcm.edu	37	15	89836228	89836228	+	Missense_Mutation	SNP	G	G	C	rs2283432	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	96	189	0	0.477612	0	G|0.715;C|0.285	0.285	strong	FANCI_ENST00000310775,NS,adenoma,0,2	FANCI	129	2	NM_001113378	exon22	c.G2225C	p.C742S	ATATCTGTGCTTT	.	PASS	Atlas-SNP
OR2G3	81469	hgsc.bcm.edu	37	1	247769752	247769752	+	Missense_Mutation	SNP	A	A	G	rs61730407	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	86	131	0	0.547771	0	A|0.629;G|0.371	0.371	strong	.	OR2G3	108	.	NM_001001914	exon1	c.A865G	p.I289V	CCTATCATCTATA	.	PASS	Atlas-SNP
C11orf93	120376	hgsc.bcm.edu	37	11	111179054	111179054	+	Silent	SNP	A	A	G	rs3087587	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	41	76	0	0.471264	0	G|0.408;N|0.000	0.408	strong	.	C11orf93	10	.	NM_001271458	exon5	c.A648G	p.A216A	CCAGGCAGCAGAG	.	PASS	Atlas-SNP
KALRN	8997	hgsc.bcm.edu	37	3	123953756	123953756	+	Silent	SNP	C	C	A	rs144465315	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	30	75	0	0.37037	0	C|0.999;A|0.001	0.001	strong	.	KALRN	556	.	NM_003947	exon3	c.C223A	p.R75R	GACCTGCGGAAAC	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96638651	96638651	+	Missense_Mutation	SNP	C	C	T	rs12863903	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	19	54	0	0.452381	0	C|0.894;T|0.106	0.106	strong	.	UGGT2	127	.	NM_020121	exon9	c.G967A	p.A323T	CTGGAGCGGACAT	.	PASS	Atlas-SNP
PTPRH	5794	hgsc.bcm.edu	37	19	55702910	55702910	+	Missense_Mutation	SNP	C	C	A	rs2288523	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	87	163	0	0.494318	0	C|0.767;A|0.233	0.233	strong	.	PTPRH	139	.	NM_002842	exon12	c.G2343T	p.K781N	CTTCTTCTTATTC	.	PASS	Atlas-SNP
HLA-DQA2	3118	hgsc.bcm.edu	37	6	32713827	32713827	+	Silent	SNP	C	C	T	rs17415959	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	783	65	573	0	0.083014	0	C|0.730;T|0.270	0.270	strong	.	HLA-DQA2	27	.	NM_020056	exon3	c.C591T	p.D197D	CCTGGACGAGCCT	.	PASS	Atlas-SNP
PUM2	23369	hgsc.bcm.edu	37	2	20494189	20494189	+	Missense_Mutation	SNP	T	T	C	rs34032508	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	56	98	0	0.491228	0	T|0.996;C|0.004	0.004	strong	.	PUM2	91	.	NM_015317	exon8	c.A1100G	p.N367S	GTGTTATTTGCCG	.	PASS	Atlas-SNP
SNX18	112574	hgsc.bcm.edu	37	5	53815219	53815219	+	Silent	SNP	G	G	A	rs35241631	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	38	65	0	0.475	0	G|0.969;A|0.031	0.031	strong	.	SNX18	102	.	NM_052870	exon1	c.G1437A	p.E479E	CTTTGAGCTGGAC	.	PASS	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	37	2	29295016	29295016	+	Silent	SNP	A	A	G	rs10200693	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	101	181	0	0.520619	0	A|0.660;G|0.340	0.340	strong	.	C2orf71	146	.	NM_001029883	exon1	c.T2112C	p.N704N	GATGGCATTTGGA	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13845045	13845045	+	Silent	SNP	G	G	A	rs10041113	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	61	92	0	0.5	0	G|0.574;A|0.426	0.426	strong	.	DNAH5	868	.	NM_001369	exon32	c.C5172T	p.A1724A	TAGAAGGGCAGGA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9086184	9086184	+	Silent	SNP	G	G	A	rs74999347	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	55	114	0	0.504587	0	G|0.961;A|0.039	0.039	strong	.	MUC16	4315	.	NM_024690	exon1	c.C5631T	p.N1877N	AGAGCCGTTTTCC	.	PASS	Atlas-SNP
NAPSA	9476	hgsc.bcm.edu	37	19	50865535	50865535	+	Missense_Mutation	SNP	A	A	G	rs676314	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	40	82	0	0.408163	0	A|0.618;G|0.382	0.382	strong	NAPSA,tonsil,carcinoma,0,1	NAPSA	38	1	NM_004851	exon2	c.T119C	p.I40T	TTCAGGATCCTGC	.	PASS	Atlas-SNP
LGR6	59352	hgsc.bcm.edu	37	1	202287754	202287754	+	Missense_Mutation	SNP	G	G	A	rs75658797	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	85	137	0	0.435897	0	G|0.899;A|0.101	0.101	strong	.	LGR6	102	.	NM_001017403	exon18	c.G2323A	p.V775M	AGGCACGTGGCCT	.	PASS	Atlas-SNP
ZNF223	7766	hgsc.bcm.edu	37	19	44570393	44570393	+	Missense_Mutation	SNP	C	C	A	rs6509138	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	81	206	0	0.442623	0	C|0.542;A|0.458	0.458	strong	.	ZNF223	61	.	NM_013361	exon5	c.C412A	p.L138I	GAAGGACTATCTA	.	PASS	Atlas-SNP
ENTPD3	956	hgsc.bcm.edu	37	3	40453432	40453432	+	Missense_Mutation	SNP	C	C	T	rs377644776		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	27	40	0	0.710526	0	.	.	weak	.	ENTPD3	48	.	NM_001248	exon5	c.C416T	p.T139M	GAGCCACGGCTGG	.	PASS	Atlas-SNP
RBMXL2	27288	hgsc.bcm.edu	37	11	7110363	7110363	+	Silent	SNP	G	G	A	rs4758158	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	54	130	0	0.534653	0	G|0.709;A|0.291	0.291	strong	.	RBMXL2	47	.	NM_014469	exon1	c.G12A	p.A4A	TGAAGCGGATCGC	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60899196	60899196	+	Missense_Mutation	SNP	C	C	T	rs116895933	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	59	106	0	0.517544	0	C|0.983;T|0.017	0.017	strong	.	LAMA5	268	.	NM_005560	exon43	c.G5708A	p.R1903K	TCGTCCCTGCTGC	.	PASS	Atlas-SNP
KIAA0319	9856	hgsc.bcm.edu	37	6	24570151	24570151	+	Silent	SNP	G	G	A	rs41271797	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250	126	209	0	0.504	0	G|0.999;A|0.001	0.001	strong	KIAA0319,NS,carcinoma,0,1	KIAA0319	117	1	NM_001168377	exon12	c.C1971T	p.F657F	GTGGTAGAAGACA	.	PASS	Atlas-SNP
WDR48	57599	hgsc.bcm.edu	37	3	39111140	39111140	+	Silent	SNP	C	C	A	rs2293312	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	57	65	0	0.686747	0	C|0.529;N|0.000	.	strong	.	WDR48	41	.	NM_020839	exon7	c.C577A	p.R193R	GTGTTACGGGTAT	.	PASS	Atlas-SNP
SLC17A3	10786	hgsc.bcm.edu	37	6	25862466	25862466	+	Missense_Mutation	SNP	C	C	T	rs1165165	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	67	84	0	0.496296	0	C|0.755;T|0.245	0.245	strong	.	SLC17A3	95	.	NM_006632	exon3	c.G298A	p.A100T	CCTTTGCAGGAAG	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25074490	25074490	+	Missense_Mutation	SNP	C	C	T	rs9578751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	23	78	0	0.410714	0	C|0.909;T|0.091	0.091	strong	.	PARP4	142	.	NM_006437	exon4	c.G365A	p.S122N	GTGGCACTGTCCG	.	PASS	Atlas-SNP
STK38	11329	hgsc.bcm.edu	37	6	36463627	36463627	+	Silent	SNP	C	C	T	rs2071809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	97	225	0	0.40249	0	C|0.930;T|0.070	0.070	strong	STK38,NS,lymphoid_neoplasm,-1,1	STK38	54	1	NM_007271	exon14	c.G1332A	p.T444T	CTTGTACGTGTAA	.	PASS	Atlas-SNP
WDR18	57418	hgsc.bcm.edu	37	19	991129	991129	+	Missense_Mutation	SNP	G	G	A	rs11538683	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	9	59	0	0.3	0	G|0.891;A|0.109	0.109	strong	.	WDR18	20	.	NM_024100	exon6	c.G790A	p.V264I	GGGAAGGTCTTCA	.	PASS	Atlas-SNP
OR2T3	343173	hgsc.bcm.edu	37	1	248637291	248637291	+	Missense_Mutation	SNP	G	G	A	rs1770109	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	267	33	615	3	0.123596	0.00487805	G|0.754;A|0.246	0.246	strong	OR2T3,trunk,malignant_melanoma,0,1	OR2T3	79	1	NM_001005495	exon1	c.G640A	p.A214T	CTTCTCGCCCCCA	.	scavenged	Atlas-SNP
SLCO1C1	53919	hgsc.bcm.edu	37	12	20903757	20903757	+	Silent	SNP	T	T	C	rs10841611	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	90	160	0	0.441176	0	T|0.496;C|0.504	0.504	strong	.	SLCO1C1	216	.	NM_001145946	exon15	c.T1947C	p.H649H	ATCTCATTGCTAC	.	PASS	Atlas-SNP
CBR3	874	hgsc.bcm.edu	37	21	37507769	37507769	+	Silent	SNP	C	C	T	rs881712	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	32	105	0	0.470588	0	C|0.666;T|0.334	0.334	strong	.	CBR3	11	.	NM_001236	exon1	c.C279T	p.V93V	GGCCGTCGCCTTC	.	PASS	Atlas-SNP
MYH13	8735	hgsc.bcm.edu	37	17	10247199	10247199	+	Silent	SNP	G	G	A	rs12938754	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	202	162	0	0.995074	0	G|0.817;A|0.183	0.183	strong	.	MYH13	533	.	NM_003802	exon16	c.C1812T	p.N604N	AGTCTCGTTCAGG	.	PASS	Atlas-SNP
OR56A4	120793	hgsc.bcm.edu	37	11	6023581	6023581	+	Silent	SNP	A	A	G	rs11040248	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	87	111	0	1	0	A|0.799;G|0.201	0.201	strong	.	OR56A4	66	.	NM_001005179	exon1	c.T798C	p.L266L	AAGGATAAGATCA	.	PASS	Atlas-SNP
DHX37	57647	hgsc.bcm.edu	37	12	125438712	125438712	+	Silent	SNP	C	C	A	rs11829165	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	79	118	0	0.537415	0	C|0.852;A|0.148	0.148	strong	DHX37,NS,carcinoma,0,1	DHX37	114	1	NM_032656	exon19	c.G2499T	p.R833R	CCGGGCCCGCTTG	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126412575	126412575	+	Silent	SNP	A	A	G	rs1014866	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	311	311	309	0	1	0	A|0.242;G|0.758	0.758	strong	.	FAT4	1752	.	NM_024582	exon17	c.A14598G	p.R4866R	TTCCAGAATGCCC	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124824869	124824869	+	Missense_Mutation	SNP	G	G	A	rs61755988	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	26	45	0	0.541667	0	G|0.997;A|0.003	0.003	strong	.	NCOR2	475	.	NM_006312	exon38	c.C5459T	p.T1820M	TCCACCGTCGTGG	.	PASS	Atlas-SNP
NBPF14	25832	hgsc.bcm.edu	37	1	148009510	148009510	+	Silent	SNP	G	G	A	rs1127394		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	61	30	0	0.360947	0	G|0.500;A|0.500	0.500	weak	NBPF14,NS,carcinoma,0,1	NBPF14	107	1	NM_015383	exon16	c.C1797T	p.S599S	CTCCCCGCTGAGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	121	155	0	0.587379	0	G|0.290;N|0.000	0.290	strong	.	SELL	43	.	NM_000655	exon3	c.T360C	p.L120L	TTCAGTAAGAGAT	.	PASS	Atlas-SNP
C6orf89	221477	hgsc.bcm.edu	37	6	36887476	36887476	+	Silent	SNP	C	C	T	rs11542163	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	76	103	0	0.580153	0	C|0.875;G|0.000;T|0.125	0.125	strong	.	C6orf89	39	.	NM_152734	exon7	c.C969T	p.I323I	GGATATCGGTATG	.	PASS	Atlas-SNP
SCNN1A	6337	hgsc.bcm.edu	37	12	6472752	6472752	+	Missense_Mutation	SNP	G	G	A	rs55797039	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	11	26	0	0.647059	0	G|0.986;A|0.014	0.014	strong	.	SCNN1A	54	.	NM_001159576	exon2	c.C718T	p.R240W	TCCCCCGCAGGTC	.	PASS	Atlas-SNP
MFRP	83552	hgsc.bcm.edu	37	11	119215046	119215046	+	Silent	SNP	C	C	T	rs35885438	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	60	119	0	0.508475	0	C|0.962;T|0.038	0.038	strong	.	MFRP	63	.	NM_031433	exon8	c.G954A	p.L318L	CTGCTGCAGGTAG	.	PASS	Atlas-SNP
DUOX2	50506	hgsc.bcm.edu	37	15	45404066	45404066	+	Missense_Mutation	SNP	G	G	A	rs2001616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	168	184	0	0.994083	0	G|0.234;A|0.766	0.766	strong	.	DUOX2	137	.	NM_014080	exon5	c.C413T	p.P138L	AACACGGGGTCTC	.	PASS	Atlas-SNP
TRPC1	7220	hgsc.bcm.edu	37	3	142503605	142503605	+	Silent	SNP	G	G	A	rs7621642	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	138	110	0	1	0	G|0.616;A|0.384	0.384	strong	TRPC1,NS,carcinoma,0,1	TRPC1	82	1	NM_001251845	exon7	c.G1020A	p.S340S	GATGTCGGGTTAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511268	195511268	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	569	27	156	0	0.0474517	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.A7183T	p.T2395S	CACCTGTGGATGC	.	PASS	Atlas-SNP
GAS2	2620	hgsc.bcm.edu	37	11	22696451	22696451	+	Silent	SNP	A	A	G	rs922571	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	94	88	0	1	0	A|0.457;G|0.543	0.543	strong	GAS2,NS,carcinoma,0,1	GAS2	46	1	NM_177553	exon2	c.A36G	p.G12G	CAGTGGACCTGGC	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21492734	21492734	+	Silent	SNP	C	C	T	rs62093184	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	31	85	0	0.397436	0	C|0.999;T|0.001	0.001	strong	.	LAMA3	397	.	NM_198129	exon56	c.C7218T	p.D2406D	AAATGACCTGGAA	.	PASS	Atlas-SNP
FRYL	285527	hgsc.bcm.edu	37	4	48582909	48582909	+	Silent	SNP	G	G	A	rs4695391	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	103	106	0	1	0	G|0.570;A|0.430	0.430	strong	.	FRYL	242	.	NM_015030	exon22	c.C2232T	p.S744S	TATGAAGCTCTCA	.	PASS	Atlas-SNP
MCPH1	79648	hgsc.bcm.edu	37	8	6272399	6272399	+	Silent	SNP	G	G	T	rs2305022	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	26	68	0	0.4	0	G|0.306;T|0.694	0.694	strong	.	MCPH1	65	.	NM_001172575	exon3	c.G228T	p.V76V	CTGGGTGGAAAAG	.	PASS	Atlas-SNP
MAGEB10	139422	hgsc.bcm.edu	37	X	27839617	27839617	+	Missense_Mutation	SNP	G	G	A	rs12557898	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	52	95	0	1	0	0|0.012;A|0.299	0.299	strong	.	MAGEB10	107	.	NM_182506	exon3	c.G194A	p.R65Q	GACTTCGGGAAGC	.	PASS	Atlas-SNP
SEMA5B	54437	hgsc.bcm.edu	37	3	122630372	122630372	+	Silent	SNP	T	T	C	rs61996303	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	21	41	0	0.456522	0	T|0.990;C|0.010	0.010	strong	.	SEMA5B	303	.	NM_001256347	exon21	c.A3219G	p.P1073P	GGAGGCTGGCAGG	.	PASS	Atlas-SNP
HECTD3	79654	hgsc.bcm.edu	37	1	45469176	45469176	+	Silent	SNP	A	A	T	rs12749251	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	75	110	0	0.669643	0	A|0.892;T|0.108	0.108	strong	.	HECTD3	158	.	NM_024602	exon21	c.T2574A	p.P858P	CTCCCAAGGGCTC	.	PASS	Atlas-SNP
ZDHHC6	64429	hgsc.bcm.edu	37	10	114200355	114200355	+	Silent	SNP	G	G	A	rs2306159	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	61	109	0	0.442029	0	G|0.496;A|0.504	0.504	strong	.	ZDHHC6	32	.	NM_022494	exon5	c.C618T	p.T206T	AAACAAGGTGGTA	.	PASS	Atlas-SNP
ACP1	52	hgsc.bcm.edu	37	2	272203	272203	+	Missense_Mutation	SNP	C	C	T	rs11553746	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	124	210	0	0.5	0	C|0.738;T|0.262	0.262	strong	ACP1_ENST00000272067,NS,carcinoma,+1,1	ACP1	42	1	NM_001040649	exon3	c.C284T	p.T95I	CATTGACAGCGGT	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32017242	32017242	+	Missense_Mutation	SNP	C	C	T	rs61745920	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	150	219	0	0.590551	0	C|0.855;T|0.145	0.145	strong	TNXB_ENST00000375247,NS,carcinoma,0,2	TNXB	553	2	NM_019105	exon28	c.G9556A	p.V3186I	GGGGGACGGTCCA	.	PASS	Atlas-SNP
SPATA19	219938	hgsc.bcm.edu	37	11	133714522	133714522	+	Missense_Mutation	SNP	G	G	A	rs2282602	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	113	114	1	1	0.00877193	G|0.673;A|0.327	0.327	strong	.	SPATA19	36	.	NM_174927	exon3	c.C149T	p.A50V	CGAGAAGCCTCTT	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	421032	421032	+	Silent	SNP	C	C	G	rs2297079	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	195	253	0	0.989848	0	C|0.538;G|0.462	0.462	strong	.	DOCK8	401	.	NM_203447	exon32	c.C4107G	p.L1369L	TTTGCTCCGTGGG	.	PASS	Atlas-SNP
COPS3	8533	hgsc.bcm.edu	37	17	17168164	17168164	+	Silent	SNP	G	G	A	rs3182911	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	66	96	0	0.578947	0	G|0.540;N|0.000	.	strong	.	COPS3	41	.	NM_003653	exon6	c.C573T	p.I191I	AGTATAGATCATC	.	PASS	Atlas-SNP
GSDMD	79792	hgsc.bcm.edu	37	8	144642854	144642854	+	Silent	SNP	G	G	A	rs11551202	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	64	147	0	0.537815	0	G|0.836;A|0.164	0.164	strong	GSDMD,NS,carcinoma,0,1	GSDMD	28	1	NM_001166237	exon7	c.G492A	p.L164L	GGTGCTGCAGACA	.	PASS	Atlas-SNP
LYPD2	137797	hgsc.bcm.edu	37	8	143833840	143833840	+	Silent	SNP	C	C	G	rs78400087	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	82	303	0	0.506173	0	C|0.985;G|0.015	0.015	strong	LYPD2,NS,carcinoma,0,1	LYPD2	18	1	NM_205545	exon1	c.G30C	p.A10A	CACCAGCGCCAGG	.	PASS	Atlas-SNP
AIFM2	84883	hgsc.bcm.edu	37	10	71874048	71874048	+	Silent	SNP	G	G	A	rs1053495	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	33	46	0	0.540984	0	G|0.845;A|0.155	0.155	strong	.	AIFM2	33	.	NM_001198696	exon9	c.C1008T	p.D336D	CACACCGTCATTT	.	PASS	Atlas-SNP
ROBO4	54538	hgsc.bcm.edu	37	11	124767125	124767125	+	Silent	SNP	G	G	A	rs73016370	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	35	88	0	0.443038	0	G|0.919;A|0.081	0.081	strong	.	ROBO4	130	.	NM_019055	exon2	c.C103T	p.L35L	GGACTAGGATCTG	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32487174	32487174	+	Missense_Mutation	SNP	C	C	G	rs112872773	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	114	70	0	0.530233	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	.	scavenged	Atlas-SNP
ACSM2B	348158	hgsc.bcm.edu	37	16	20576048	20576048	+	Silent	SNP	C	C	A	rs78729855	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	83	169	0	0.427835	0	C|0.500;A|0.500	0.500	weak	.	ACSM2B	121	.	NM_182617	exon3	c.G120T	p.V40V	GGCCGGCACTTCC	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150947719	150947719	+	Silent	SNP	C	C	T	rs3734060	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	49	121	0	0.35	0	C|0.527;T|0.473	0.473	strong	FAT2,colon,carcinoma,0,2	FAT2	465	2	NM_001447	exon1	c.G774A	p.S258S	CACCACCGAAGCA	.	PASS	Atlas-SNP
PADI4	23569	hgsc.bcm.edu	37	1	17657534	17657534	+	Missense_Mutation	SNP	G	G	A	rs11203366	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	29	106	0	0.453125	0	G|0.448;A|0.552	0.552	strong	.	PADI4	70	.	NM_012387	exon2	c.G163A	p.G55S	GCCCACGGCCCTC	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121452897	121452897	+	Silent	SNP	G	G	A	rs150710532	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	14	44	0	0.297872	0	G|0.988;A|0.012	0.012	strong	.	C6orf170	146	.	NM_152730	exon25	c.C2775T	p.D925D	ATCATTGTCTAAT	.	PASS	Atlas-SNP
MLC1	23209	hgsc.bcm.edu	37	22	50502544	50502544	+	Silent	SNP	G	G	A	rs11568186	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	37	144	0	0.486842	0	G|0.891;A|0.109	0.109	strong	.	MLC1	48	.	NM_015166	exon11	c.C978T	p.C326C	GCGCACGCACTGG	.	PASS	Atlas-SNP
KDR	3791	hgsc.bcm.edu	37	4	55979558	55979558	+	Missense_Mutation	SNP	C	C	T	rs2305948	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	87	183	0	0.47027	0	C|0.854;A|0.000	.	strong	KDR,NS,carcinoma,0,1	KDR	307	1	NM_002253	exon7	c.G889A	p.V297I	GGGTTACACCATC	.	PASS	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166149	41166149	+	Missense_Mutation	SNP	A	A	G	rs71544266	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	43	74	0	0.505882	0	ACACTGT|0.500;GCGCTCC|0.500	.	alt	.	TREML2	41	.	NM_024807	exon2	c.T74C	p.V25A	GTGTATACACTGT	.	PASS	Atlas-SNP
CIDEA	1149	hgsc.bcm.edu	37	18	12274104	12274104	+	Missense_Mutation	SNP	G	G	T	rs11545881	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	27	39	0	0.465517	0	C|0.000;G|0.668;T|0.332	0.332	strong	.	CIDEA	32	.	NM_001279	exon4	c.G343T	p.V115F	CAGCACGTCCCCA	.	PASS	Atlas-SNP
GLOD4	51031	hgsc.bcm.edu	37	17	663467	663467	+	Silent	SNP	T	T	A	rs74757321	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	32	70	0	0.5	0	T|0.978;A|0.022	0.022	strong	.	GLOD4	12	.	NM_016080	exon9	c.A843T	p.A281A	TTTATCTGCTGCC	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7890055	7890055	+	Silent	SNP	T	T	A	rs11121034	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	25	263	0	0.260417	0	T|0.954;A|0.046	0.046	strong	PER3,NS,carcinoma,+2,1	PER3	95	1	NM_016831	exon18	c.T3021A	p.A1007A	CAGCGCTCTGTCC	.	PASS	Atlas-SNP
SCN9A	6335	hgsc.bcm.edu	37	2	167145142	167145142	+	Silent	SNP	A	A	G	rs13414203	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	16	39	0	0.372093	0	A|0.652;G|0.348	0.348	strong	.	SCN9A	296	.	NM_002977	exon10	c.T1119C	p.A373A	GCCAGCAGCACGC	.	PASS	Atlas-SNP
MATN4	8785	hgsc.bcm.edu	37	20	43933196	43933196	+	Silent	SNP	C	C	T	rs2233093	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	80	75	0	0.97561	0	C|0.801;T|0.199	0.199	strong	.	MATN4	57	.	NM_030592	exon3	c.G315A	p.V105V	CAGAGGCACCAGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508009	195508009	+	Missense_Mutation	SNP	G	G	A	rs201765368		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	291	91	84	14	0.312715	0.166667	.	.	weak	MUC4_ENST00000463781,colon,carcinoma,-1,1	MUC4	1505	1	NM_018406	exon2	c.C10442T	p.A3481V	GTAGATGCTGAGG	.	scavenged	Atlas-SNP
OXNAD1	92106	hgsc.bcm.edu	37	3	16312564	16312564	+	Silent	SNP	C	C	T	rs842259	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	74	155	0	0.453988	0	C|0.609;T|0.391	0.391	strong	OXNAD1,rectum,carcinoma,0,1	OXNAD1	31	1	NM_138381	exon3	c.C105T	p.H35H	GCGCCACCTTACT	.	PASS	Atlas-SNP
CEP120	153241	hgsc.bcm.edu	37	5	122720648	122720648	+	Missense_Mutation	SNP	T	T	A	rs147430819		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	62	95	0	0.529915	0	T|1.000;A|0.000	0.000	weak	.	CEP120	72	.	NM_153223	exon12	c.A1760T	p.Q587L	TACCCTTGTGCTG	.	PASS	Atlas-SNP
FOXRED2	80020	hgsc.bcm.edu	37	22	36897427	36897427	+	Silent	SNP	T	T	C	rs5756223	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	59	100	0	0.495798	0	T|0.944;C|0.056	0.056	strong	.	FOXRED2	48	.	NM_001102371	exon5	c.A1077G	p.A359A	GCCGAATGCATTT	.	PASS	Atlas-SNP
GPR180	160897	hgsc.bcm.edu	37	13	95273447	95273447	+	Silent	SNP	G	G	A	rs12429818	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	122	100	0	0.99187	0	G|0.877;A|0.123	0.123	strong	.	GPR180	24	.	NM_180989	exon6	c.G852A	p.T284T	TTCTACGCCTGCA	.	PASS	Atlas-SNP
SERPINB3	6317	hgsc.bcm.edu	37	18	61322995	61322995	+	Missense_Mutation	SNP	T	T	C	rs1065205	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	231	134	195	0	0.580087	0	T|0.864;C|0.136	0.136	strong	.	SERPINB3	90	.	NM_006919	exon8	c.A1069G	p.T357A	TTGAAGTAGGTGA	.	PASS	Atlas-SNP
GRHL2	79977	hgsc.bcm.edu	37	8	102555474	102555474	+	Missense_Mutation	SNP	A	A	G	rs3735709	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	69	119	0	0.547619	0	A|0.979;G|0.021	0.021	strong	.	GRHL2	68	.	NM_024915	exon2	c.A26G	p.K9R	GTAATAAAAGACT	.	PASS	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	37	8	69143589	69143589	+	Silent	SNP	A	A	G	rs2280637	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	36	50	0	0.493151	0	A|0.724;G|0.276	0.276	strong	.	PREX2	614	.	NM_024870	exon40	c.A4797G	p.P1599P	CGAGCCACCTCCC	.	PASS	Atlas-SNP
RARS	5917	hgsc.bcm.edu	37	5	167924260	167924260	+	Silent	SNP	C	C	A	rs11557637	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	97	80	0	0.989796	0	C|0.883;A|0.117	0.117	strong	.	RARS	58	.	NM_002887	exon7	c.C729A	p.T243T	GGGGACCCAGTTT	.	PASS	Atlas-SNP
KLK4	9622	hgsc.bcm.edu	37	19	51412666	51412666	+	Silent	SNP	C	C	A	rs1654552	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	134	115	0	0.992593	0	C|0.685;A|0.315	0.315	strong	KLK4,colon,carcinoma,0,2	KLK4	46	2	NM_004917	exon2	c.G66T	p.S22S	GACGAGCGATCCT	.	PASS	Atlas-SNP
TRIM22	10346	hgsc.bcm.edu	37	11	5719750	5719750	+	Missense_Mutation	SNP	G	G	C	rs1063303	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	171	194	0	0.994186	0	G|0.570;C|0.430	0.430	strong	TRIM22,NS,carcinoma,0,1	TRIM22	66	1	NM_006074	exon4	c.G725C	p.R242T	GGTTGAGGGGATC	.	PASS	Atlas-SNP
TUBB8	347688	hgsc.bcm.edu	37	10	94004	94004	+	Missense_Mutation	SNP	C	C	T	rs145405488	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	460	7	382	0	0.0152174	0	C|0.991;T|0.009	0.009	strong	TUBB8,colon,carcinoma,+2,2	TUBB8	62	2	NM_177987	exon4	c.G328A	p.A110T	GCTCCGCGCCTTC	.	scavenged	Atlas-SNP
KLHL33	123103	hgsc.bcm.edu	37	14	20898308	20898308	+	Missense_Mutation	SNP	C	C	T	rs17242648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	32	51	0	0.484848	0	C|0.873;T|0.127	0.127	strong	.	KLHL33	37	.	NM_001109997	exon2	c.G527A	p.R176Q	GCTGCCCGCACCC	.	PASS	Atlas-SNP
ANKRD30B	374860	hgsc.bcm.edu	37	18	14779986	14779986	+	Missense_Mutation	SNP	G	G	A	rs76927023	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	19	116	0	0.179245	0	.	.	weak	ANKRD30B_ENST00000358984,bladder,carcinoma,0,2	ANKRD30B	237	2	NM_001145029	exon11	c.G1448A	p.R483Q	CCAAACGAGAGGA	.	PASS	Atlas-SNP
NLRP5	126206	hgsc.bcm.edu	37	19	56572875	56572875	+	Missense_Mutation	SNP	G	G	A	rs36118060	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	63	144	0	0.516393	0	G|0.825;A|0.175	0.175	strong	.	NLRP5	217	.	NM_153447	exon15	c.G3584A	p.R1195Q	ATGACCGGTACTG	.	PASS	Atlas-SNP
PTBP1	5725	hgsc.bcm.edu	37	19	804642	804642	+	Silent	SNP	C	C	T	rs3170451	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	24	39	0	0.461538	0	C|0.860;T|0.140	0.140	strong	PTBP1,NS,carcinoma,0,1	PTBP1	43	1	NM_031990	exon6	c.C546T	p.P182P	GAGCCCCGTGCTC	.	PASS	Atlas-SNP
KCNA1	3736	hgsc.bcm.edu	37	12	5021348	5021348	+	Silent	SNP	G	G	C	rs2227910	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	119	97	0	0.991667	0	G|0.461;C|0.539	0.539	strong	.	KCNA1	112	.	NM_000217	exon2	c.G804C	p.T268T	CATCACGCTGGGC	.	PASS	Atlas-SNP
SAT2	112483	hgsc.bcm.edu	37	17	7530271	7530271	+	Silent	SNP	C	C	T	rs858520	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	28	74	0	0.528302	0	C|0.723;T|0.277	0.277	strong	.	SAT2	8	.	NM_133491	exon4	c.G294A	p.P98P	ATATTCCGGCATC	.	PASS	Atlas-SNP
ARHGEF4	50649	hgsc.bcm.edu	37	2	131688587	131688587	+	Silent	SNP	G	G	A	rs6718816	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	43	74	0	0.467391	0	G|0.748;A|0.252	0.252	strong	ARHGEF4,NS,carcinoma,+2,1	ARHGEF4	89	1	NM_032995	exon3	c.G57A	p.A19A	GAAGGCGTTCCAC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9006749	9006749	+	Missense_Mutation	SNP	C	C	T	rs75444444	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	279	275	200	1	0.985663	0.005	C|0.824;T|0.176	0.176	strong	.	MUC16	4315	.	NM_024690	exon44	c.G39499A	p.V13167M	ATGGCACCAGGAG	.	PASS	Atlas-SNP
SH2D3C	10044	hgsc.bcm.edu	37	9	130536717	130536717	+	Missense_Mutation	SNP	G	G	A	rs10760500	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	38	106	0	0.469136	0	G|0.503;A|0.497	0.497	strong	.	SH2D3C	102	.	NM_170600	exon2	c.C67T	p.L23F	TGGAGAGACTCCC	.	PASS	Atlas-SNP
RAET1E	135250	hgsc.bcm.edu	37	6	150209717	150209717	+	Missense_Mutation	SNP	C	C	G	rs2342767	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	52	95	0	0.52	0	C|0.523;G|0.477	0.477	strong	.	RAET1E	20	.	NM_139165	exon4	c.G709C	p.V237L	TTAAAACTAACAG	.	PASS	Atlas-SNP
SLC30A9	10463	hgsc.bcm.edu	37	4	42003671	42003671	+	Missense_Mutation	SNP	A	A	G	rs1047626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	81	165	0	0.462857	0	A|0.395;G|0.605	0.605	strong	.	SLC30A9	58	.	NM_006345	exon2	c.A148G	p.M50V	TCAAACATGGTTC	.	PASS	Atlas-SNP
RARG	5916	hgsc.bcm.edu	37	12	53605545	53605545	+	Missense_Mutation	SNP	G	G	A	rs2229774	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	27	50	0	0.465517	0	G|0.927;A|0.073	0.073	strong	.	RARG	53	.	NM_000966	exon10	c.C1280T	p.S427L	GGCTGCGAGGAGT	.	PASS	Atlas-SNP
SORCS1	114815	hgsc.bcm.edu	37	10	108339080	108339080	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	41	67	0	0.493976	0	.	.	none	.	SORCS1	534	.	NM_001206571	exon25	c.C3418T	p.L1140F	CAGGGAGAAGGAA	.	PASS	Atlas-SNP
FAM214B	80256	hgsc.bcm.edu	37	9	35107740	35107740	+	Missense_Mutation	SNP	C	C	T	rs61735988	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	54	92	0	0.586957	0	C|0.988;T|0.012	0.012	strong	.	.	.	.	NM_025182	exon3	c.G532A	p.A178T	GAGGGGCTGGCCC	.	PASS	Atlas-SNP
FBXO42	54455	hgsc.bcm.edu	37	1	16641899	16641899	+	Silent	SNP	C	C	T	rs2273311	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	141	179	0	1	0	C|0.658;T|0.342	0.342	strong	.	FBXO42	53	.	NM_018994	exon2	c.G15A	p.S5S	ACTGTCCGAGGAG	.	PASS	Atlas-SNP
EFTUD1	79631	hgsc.bcm.edu	37	15	82456227	82456227	+	Missense_Mutation	SNP	T	T	C	rs1128431	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	61	162	0	0.465649	0	T|0.838;C|0.162	0.162	strong	.	EFTUD1	74	.	NM_024580	exon16	c.A1849G	p.I617V	TCACAATAGGAGT	.	PASS	Atlas-SNP
MUT	4594	hgsc.bcm.edu	37	6	49412433	49412433	+	Missense_Mutation	SNP	C	C	T	rs1141321	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	55	67	0	0.561224	0	T|0.242;G|0.135;C|0.582;A|0.041	0.242	strong	.	MUT	70	.	NM_000255	exon9	c.G1595A	p.R532H	AGACAACGTTCAG	.	PASS	Atlas-SNP
DSP	1832	hgsc.bcm.edu	37	6	7580228	7580228	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	2	124	0	0.0131579	0	.	.	none	DSP,NS,carcinoma,-1,2	DSP	306	2	NM_004415	exon23	c.C3805T	p.R1269X	CGAAGGCGAGCTG	.	scavenged	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141796215	141796215	+	Silent	SNP	T	T	C	rs199885850		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	368	7	416	1	0.0190217	0.00240385	.	.	weak	MGAM_ENST00000549489,NS,carcinoma,+2,6	MGAM	767	6	NM_004668	exon42	c.T5004C	p.R1668R	GGAGCGTGTGAGT	.	scavenged	Atlas-SNP
NUMA1	4926	hgsc.bcm.edu	37	11	71724784	71724784	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	29	64	0	0.5	0	.	.	none	.	NUMA1	142	.	NM_006185	exon15	c.G3765A	p.V1255V	GGCCATCACCAGC	.	PASS	Atlas-SNP
C1orf101	257044	hgsc.bcm.edu	37	1	244724092	244724092	+	Silent	SNP	G	G	A	rs7544794	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	97	173	0	0.515957	0	G|0.779;A|0.221	0.221	strong	.	C1orf101	158	.	NM_173807	exon10	c.G1152A	p.S384S	TCTATCGGTGACT	.	PASS	Atlas-SNP
ZNF14	7561	hgsc.bcm.edu	37	19	19823270	19823270	+	Missense_Mutation	SNP	T	T	A	rs12973901	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	74	68	0	1	0	T|0.808;A|0.192	0.192	strong	.	ZNF14	89	.	NM_021030	exon4	c.A820T	p.T274S	CTCCAGTGTGAGT	.	PASS	Atlas-SNP
MFRP	83552	hgsc.bcm.edu	37	11	119216504	119216504	+	Missense_Mutation	SNP	C	C	T	rs3814762	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	35	68	0	0.614035	0	C|0.774;T|0.226	0.226	strong	.	MFRP	63	.	NM_031433	exon4	c.G406A	p.V136M	GGCTCACGCCTGA	.	PASS	Atlas-SNP
APIP	51074	hgsc.bcm.edu	37	11	34937828	34937828	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	25	62	0	0.301205	0	.	.	none	.	APIP	21	.	NM_015957	exon1	c.T4C	p.S2P	AGCCAGACATGGC	.	PASS	Atlas-SNP
SIGLEC10	89790	hgsc.bcm.edu	37	19	51920619	51920619	+	Silent	SNP	G	G	C	rs61741679	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	84	182	0	0.512195	0	G|0.925;C|0.075	0.075	strong	SIGLEC12_ENST00000439889,NS,carcinoma,0,2	SIGLEC10	112	2	NM_001171161	exon2	c.C138G	p.P46P	CTGTCGGGGGTAG	.	PASS	Atlas-SNP
HRCT1	646962	hgsc.bcm.edu	37	9	35906624	35906624	+	Missense_Mutation	SNP	G	G	A	rs75458097	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	22	40	0	0.52381	0	G|0.954;A|0.046	0.046	strong	HRCT1,NS,haematopoietic_neoplasm,0,1	HRCT1	14	1	NM_001039792	exon1	c.G340A	p.A114T	CGCCACGCTCGCT	.	PASS	Atlas-SNP
SLC44A5	204962	hgsc.bcm.edu	37	1	75672376	75672376	+	Silent	SNP	A	A	G	rs1948874	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	42	115	0	0.47191	0	A|0.619;G|0.381	0.381	strong	.	SLC44A5	231	.	NM_152697	exon24	c.T2076C	p.S692S	TTCTGTAGATCCA	.	PASS	Atlas-SNP
ZDBF2	57683	hgsc.bcm.edu	37	2	207174316	207174316	+	Silent	SNP	T	T	C	rs3732084	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	35	88	0	0.397727	0	T|0.525;C|0.475	0.475	strong	.	ZDBF2	531	.	NM_020923	exon5	c.T5064C	p.S1688S	AGCCAGTCTTCGG	.	PASS	Atlas-SNP
RNF25	64320	hgsc.bcm.edu	37	2	219529247	219529247	+	Silent	SNP	A	A	C	rs2303562	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	26	64	0	0.440678	0	A|0.937;C|0.063;T|0.000	0.063	strong	.	RNF25	40	.	NM_022453	exon10	c.T813G	p.P271P	TTCCGCAGGGGCA	.	PASS	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	37	19	11326125	11326125	+	Silent	SNP	C	C	T	rs2304154	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	56	121	0	0.491228	0	C|0.497;T|0.503	0.503	strong	.	DOCK6	104	.	NM_020812	exon32	c.G4044A	p.P1348P	ATTCTCCGGATTC	.	PASS	Atlas-SNP
SRRM5	100170229	hgsc.bcm.edu	37	19	44118188	44118188	+	Missense_Mutation	SNP	A	A	C	rs3815422	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	18	47	0	0.428571	0	A|0.799;C|0.201	0.201	strong	SRRM5,NS,carcinoma,0,1	SRRM5	38	1	NM_001145641	exon1	c.A1915C	p.S639R	AAGGAGAGCGACC	.	PASS	Atlas-SNP
DDX52	11056	hgsc.bcm.edu	37	17	35984410	35984410	+	Missense_Mutation	SNP	T	T	C	rs7216445	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	52	71	0	0.981132	0	C|0.654;T|0.346	0.654	strong	.	DDX52	40	.	NM_007010	exon9	c.A1207G	p.M403V	CTCTCATGGCCAG	.	PASS	Atlas-SNP
PRSS3	5646	hgsc.bcm.edu	37	9	33797962	33797962	+	Silent	SNP	A	A	G	rs374178684	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	319	13	287	13	0.0407524	0.0452962	.	.	weak	PRSS3_ENST00000361005,NS,neuroblastoma,0,3	PRSS3	79	3	NM_007343	exon3	c.A507G	p.K169K	GATCAAACTCTCC	.	scavenged	Atlas-SNP
HUS1B	135458	hgsc.bcm.edu	37	6	656343	656343	+	Missense_Mutation	SNP	T	T	C	rs17136239	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	73	104	0	0.474026	0	T|0.905;C|0.095	0.095	strong	.	HUS1B	26	.	NM_148959	exon1	c.A602G	p.Q201R	TAACTTTGAATGG	.	PASS	Atlas-SNP
KIAA0226	9711	hgsc.bcm.edu	37	3	197427515	197427515	+	Silent	SNP	C	C	T	rs116791711	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	77	204	0	0.368421	0	C|0.987;T|0.013	0.013	strong	Q96CK5_HUMAN,NS,carcinoma,-1,6	KIAA0226	136	6	NM_014687	exon7	c.G1230A	p.S410S	GGTATCCGAATGG	.	PASS	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	37	1	154842243	154842243	+	Silent	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	24	68	7	0.521739	0.102941	.	.	none	KCNN3,NS,carcinoma,0,3	KCNN3	141	3	NM_001204087	exon1	c.T198G	p.L66L	CTGCTGAAGCTGC	.	scavenged	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179440029	179440029	+	Silent	SNP	G	G	A	rs12464787	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	94	142	0	0.516484	0	G|0.832;A|0.168	0.168	strong	.	TTN	18412	.	NM_001267550	exon326	c.C70830T	p.S23610S	CCCCGCGCTGTTC	.	PASS	Atlas-SNP
TOP2A	7153	hgsc.bcm.edu	37	17	38548586	38548586	+	Silent	SNP	T	T	G	rs34270904	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	92	290	0	0.369478	0	T|0.966;G|0.034	0.034	strong	.	TOP2A	124	.	NM_001067	exon31	c.A3972C	p.T1324T	GAATTTTGTTTTT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509611	195509611	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	472	8	171	1	0.0169492	0.00584795	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.T8840A	p.V2947D	TCGGTGACAGGAA	.	scavenged	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	37	4	175898990	175898990	+	Missense_Mutation	SNP	G	G	T	rs200104149		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	36	165	0	0.171429	0	.	.	weak	ADAM29,colon,carcinoma,-2,1	ADAM29	262	1	NM_001130703	exon4	c.G2314T	p.V772L	CCTCGGGTGATGC	.	PASS	Atlas-SNP
KCNJ3	3760	hgsc.bcm.edu	37	2	155711357	155711357	+	Silent	SNP	T	T	C	rs17642086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	72	178	0	0.421053	0	T|0.753;C|0.247	0.247	strong	.	KCNJ3	126	.	NM_002239	exon3	c.T1038C	p.H346H	GTTCCATGCAACA	.	PASS	Atlas-SNP
ARHGEF38	54848	hgsc.bcm.edu	37	4	106510470	106510470	+	Missense_Mutation	SNP	A	A	G	rs2276970	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	43	88	0	0.409524	0	A|0.908;G|0.092	0.092	strong	.	ARHGEF38	52	.	NM_001242729	exon2	c.A262G	p.M88V	CATCATATGAAGA	.	PASS	Atlas-SNP
ALDH1L1	10840	hgsc.bcm.edu	37	3	125872384	125872384	+	Missense_Mutation	SNP	A	A	G	rs3796191	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	47	95	0	0.451923	0	A|0.945;G|0.055	0.055	strong	.	ALDH1L1	138	.	NM_001270364	exon7	c.T791C	p.L264P	GGCACCAGGCCTG	.	PASS	Atlas-SNP
KIF1B	23095	hgsc.bcm.edu	37	1	10363664	10363664	+	Missense_Mutation	SNP	G	G	T	rs41274458	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	81	114	0	0.663934	0	G|0.984;T|0.016	0.016	strong	.	KIF1B	242	.	NM_183416	exon21	c.G2421T	p.M807I	CGTCATGGCCACT	.	PASS	Atlas-SNP
MAPKBP1	23005	hgsc.bcm.edu	37	15	42115747	42115747	+	Missense_Mutation	SNP	G	G	C	rs3959569	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	72	107	0	0.533333	0	G|0.740;C|0.260	0.260	strong	.	MAPKBP1	120	.	NM_001128608	exon30	c.G3719C	p.R1240P	ATGGCCGTCCGTC	.	PASS	Atlas-SNP
AFAP1	60312	hgsc.bcm.edu	37	4	7844953	7844953	+	Silent	SNP	G	G	A	rs28669852	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	55	120	0	0.495495	0	G|0.942;A|0.058	0.058	strong	.	AFAP1	93	.	NM_001134647	exon5	c.C459T	p.D153D	TTTGGCGTCCTTG	.	PASS	Atlas-SNP
FGD5	152273	hgsc.bcm.edu	37	3	14860968	14860968	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	293	126	212	0	0.430034	0	.	.	none	FGD5_ENST00000285046,NS,carcinoma,+1,1	FGD5	248	1	NM_152536	exon1	c.G390A	p.A130A	AGGAGCGCTGAGC	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88501971	88501971	+	Missense_Mutation	SNP	T	T	A	rs3812956	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	33	51	0	0.52381	0	T|0.680;A|0.320	0.320	strong	.	ZNF469	121	.	NM_001127464	exon2	c.T8009A	p.L2670Q	CCACTCTGGGACC	.	PASS	Atlas-SNP
CCL27	10850	hgsc.bcm.edu	37	9	34661994	34661994	+	Missense_Mutation	SNP	G	G	A	rs11575584	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	63	110	0	0.470149	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
NES	10763	hgsc.bcm.edu	37	1	156639753	156639753	+	Silent	SNP	G	G	A	rs11582300	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	300	137	235	1	0.456667	0.00425532	G|0.413;A|0.587	0.587	strong	.	NES	196	.	NM_006617	exon4	c.C4227T	p.S1409S	CCCATCGGACTCC	.	PASS	Atlas-SNP
AGO2	27161	hgsc.bcm.edu	37	8	141551407	141551407	+	Silent	SNP	G	G	A	rs2293939	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	60	43	0	1	0	G|0.783;A|0.217	0.217	strong	.	.	.	.	NM_012154	exon15	c.C1890T	p.R630R	CTGCACGCGCACG	.	PASS	Atlas-SNP
BEAN1	146227	hgsc.bcm.edu	37	16	66514549	66514549	+	Silent	SNP	A	A	G	rs141546513	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	59	153	0	0.421429	0	A|1.000;G|0.000	0.000	strong	.	BEAN1	6	.	NM_001178020	exon5	c.A501G	p.P167P	ACCACCACCCTAC	.	PASS	Atlas-SNP
SOGA2	23255	hgsc.bcm.edu	37	18	8783835	8783835	+	Missense_Mutation	SNP	T	T	C	rs35739383	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	55	62	0	0.982143	0	T|0.555;C|0.445	0.445	strong	.	.	.	.	NM_015210	exon6	c.T725C	p.M242T	AGGACATGCGGGG	.	PASS	Atlas-SNP
PHLDB1	23187	hgsc.bcm.edu	37	11	118516274	118516274	+	Missense_Mutation	SNP	G	G	A	rs149914355	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	61	91	0	0.484127	0	G|0.998;A|0.002	0.002	strong	.	PHLDB1	103	.	NM_001144758	exon16	c.G3322A	p.A1108T	GAGCACGCCTATG	.	PASS	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4825314	4825314	+	Silent	SNP	C	C	T	rs11768079	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	9	44	0	0.6	0	C|0.954;T|0.046	0.046	strong	.	.	.	.	NM_014855	exon9	c.C1131T	p.H377H	GAGCCACGGTGAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506267	195506267	+	Missense_Mutation	SNP	C	C	T	rs370995233		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	118	277	0	0.723926	0	.	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.G12184A	p.A4062T	GGGTGGCGTGACC	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14819370	14819370	+	Missense_Mutation	SNP	G	G	T	rs7023244	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	25	88	0	0.320513	0	G|0.830;T|0.170	0.170	strong	.	FREM1	261	.	NM_144966	exon15	c.C2408A	p.S803Y	GCATCAGAAATTA	.	PASS	Atlas-SNP
TMC3	342125	hgsc.bcm.edu	37	15	81625385	81625385	+	Missense_Mutation	SNP	C	C	T	rs11636318	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	83	103	0	1	0	C|0.473;T|0.527	0.527	strong	.	TMC3	112	.	NM_001080532	exon22	c.G2678A	p.C893Y	GAGTCACATTCAT	.	PASS	Atlas-SNP
AQPEP	0	hgsc.bcm.edu	37	5	115336862	115336862	+	Silent	SNP	T	T	C	rs7712021	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	111	202	0	0.445783	0	C|0.307;N|0.000	0.307	strong	.	.	.	.	NM_173800	exon10	c.T1746C	p.N582N	TTTAAATGTGTCT	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910557	29910557	+	Missense_Mutation	SNP	T	T	A	rs1136659	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	11	80	0	0.192982	0	A|0.086;T|0.914	0.086	strong	HLA-A,NS,lymphoid_neoplasm,-1,1	HLA-A	89	1	NM_001242758	exon2	c.T97A	p.F33I	TATTTCTTCACAT	.	PASS	Atlas-SNP
REG3A	5068	hgsc.bcm.edu	37	2	79385499	79385499	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	321	16	254	3	0.0498442	0.011811	.	.	none	REG3A,NS,carcinoma,+1,1	REG3A	76	1	NM_138938	exon3	c.G286A	p.G96S	TGTTACCAATGCT	.	scavenged	Atlas-SNP
KLKB1	3818	hgsc.bcm.edu	37	4	187178437	187178437	+	Missense_Mutation	SNP	G	G	A	rs121964951	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	55	125	1	0.423077	0.008	G|1.000;A|0.000	0.000	strong	KLKB1_ENST00000264690,colon,carcinoma,0,2	KLKB1	155	2	NM_000892	exon14	c.G1643A	p.C548Y	AAGAATGCCAGAA	.	scavenged	Atlas-SNP
MRO	83876	hgsc.bcm.edu	37	18	48346024	48346024	+	Missense_Mutation	SNP	G	G	T	rs3813089	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	65	90	0	0.984848	0	G|0.849;T|0.151	0.151	strong	.	MRO	36	.	NM_001127175	exon2	c.C68A	p.T23N	TCCCGGGTAGTAG	.	PASS	Atlas-SNP
CASP5	838	hgsc.bcm.edu	37	11	104869708	104869708	+	Missense_Mutation	SNP	G	G	C	rs523104	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	139	174	0	1	0	G|0.508;C|0.492	0.492	strong	CASP5_ENST00000393141,NS,carcinoma,0,2	CASP5	213	2	NM_001136112	exon7	c.C1039G	p.L347V	AGATGAGTGCCAA	.	PASS	Atlas-SNP
SUSD2	56241	hgsc.bcm.edu	37	22	24582041	24582041	+	Missense_Mutation	SNP	A	A	G	rs8141797	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	53	142	0	0.441667	0	A|0.901;G|0.099	0.099	strong	.	SUSD2	68	.	NM_019601	exon9	c.A1397G	p.N466S	CATTCAATGGGCG	.	PASS	Atlas-SNP
ULK4	54986	hgsc.bcm.edu	37	3	41925398	41925398	+	Missense_Mutation	SNP	C	C	T	rs1052501	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	307	306	353	0	0.996743	0	C|0.304;T|0.696	0.696	strong	.	ULK4	150	.	NM_017886	exon17	c.G1624A	p.A542T	GCTCAGCTGTGTG	.	PASS	Atlas-SNP
SEC23IP	11196	hgsc.bcm.edu	37	10	121671651	121671651	+	Silent	SNP	T	T	C	rs17099368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	231	98	292	0	0.424242	0	T|0.939;C|0.061	0.061	strong	SEC23IP,NS,carcinoma,0,1	SEC23IP	100	1	NM_007190	exon6	c.T1287C	p.D429D	AATTGATGATAAC	.	PASS	Atlas-SNP
ZCCHC14	23174	hgsc.bcm.edu	37	16	87445270	87445270	+	Silent	SNP	T	T	C	rs3748399	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	24	70	0	0.40678	0	T|0.901;C|0.099	0.099	strong	ZCCHC14,rectum,carcinoma,-2,1	ZCCHC14	87	1	NM_015144	exon12	c.A2646G	p.T882T	CCCTGCTGTCCCT	.	PASS	Atlas-SNP
UGT2B4	7363	hgsc.bcm.edu	37	4	70361163	70361163	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	28	135	0	0.178344	0	.	.	none	.	UGT2B4	105	.	NM_021139	exon1	c.A417G	p.K139K	CTGTAGTTTCTTC	.	PASS	Atlas-SNP
HIST1H1A	3024	hgsc.bcm.edu	37	6	26017542	26017542	+	Missense_Mutation	SNP	T	T	C	rs16891235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	362	360	236	0	0.994475	0	T|0.908;C|0.092	0.092	strong	.	HIST1H1A	25	.	NM_005325	exon1	c.A419G	p.K140R	GCCTTTTTGAGCT	.	PASS	Atlas-SNP
TMEM133	83935	hgsc.bcm.edu	37	11	100863354	100863354	+	Silent	SNP	C	C	A	rs471933	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	58	151	0	0.460317	0	T|0.002;G|0.004	.	strong	.	TMEM133	9	.	NM_032021	exon1	c.C315A	p.V105V	CATTGTCACCGTT	.	PASS	Atlas-SNP
CNOT1	23019	hgsc.bcm.edu	37	16	58616984	58616984	+	Silent	SNP	T	T	C	rs17854029	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	98	164	0	0.505155	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
TMED9	54732	hgsc.bcm.edu	37	5	177019262	177019262	+	Missense_Mutation	SNP	C	C	G	rs57960711	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	66	125	0	0.725275	0	C|0.965;G|0.035	0.035	strong	.	TMED9	18	.	NM_017510	exon1	c.C47G	p.T16S	CCGGAACCGGGCT	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	6986227	6986227	+	Missense_Mutation	SNP	G	G	A	rs12607841	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	113	180	0	0.601064	0	G|0.855;A|0.145	0.145	strong	LAMA1,caecum,carcinoma,+1,1	LAMA1	458	1	NM_005559	exon37	c.C5288T	p.A1763V	TCAGCCGCCTTTA	.	PASS	Atlas-SNP
IKBKE	9641	hgsc.bcm.edu	37	1	206651107	206651107	+	Silent	SNP	G	G	A	rs2297545	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	76	133	0	0.493506	0	G|0.745;A|0.255	0.255	strong	IKBKE,NS,carcinoma,0,1	IKBKE	77	1	NM_001193322	exon8	c.G717A	p.T239T	CACCACGGAGAAG	.	PASS	Atlas-SNP
CYP2A13	1553	hgsc.bcm.edu	37	19	41594954	41594954	+	Nonsense_Mutation	SNP	C	C	T	rs72552266	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	418	36	333	0	0.0861244	0	C|0.985;T|0.015	0.015	strong	CYP2A13,caecum,carcinoma,-1,1	CYP2A13	90	1	NM_000766	exon2	c.C301T	p.R101X	AGCGGGCGAGGCG	.	scavenged	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	37	17	18220674	18220674	+	Missense_Mutation	SNP	C	C	T	rs8080966	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	53	122	0	0.441667	0	C|0.770;T|0.230	0.230	strong	.	SMCR8	62	.	NM_144775	exon1	c.C1571T	p.P524L	CCTGCCCCTCTGA	.	PASS	Atlas-SNP
RBM5	10181	hgsc.bcm.edu	37	3	50153356	50153356	+	Silent	SNP	T	T	C	rs1138536	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	48	96	0	0.413793	0	T|0.328;C|0.672	0.672	strong	.	RBM5	76	.	NM_005778	exon22	c.T2037C	p.Y679Y	CATCTATCGACGA	.	PASS	Atlas-SNP
TAS2R31	259290	hgsc.bcm.edu	37	12	11183108	11183108	+	Missense_Mutation	SNP	G	G	C	rs74807793	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	453	192	506	0	0.423841	0	.	.	weak	.	TAS2R31	24	.	NM_176885	exon1	c.C827G	p.P276R	ATGAATGGGTGGA	.	PASS	Atlas-SNP
OR4L1	122742	hgsc.bcm.edu	37	14	20528528	20528528	+	Missense_Mutation	SNP	G	G	A	rs2775254	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	123	128	0	1	0	G|0.625;A|0.375	0.375	strong	.	OR4L1	98	.	NM_001004717	exon1	c.G325A	p.G109S	TTTGGGGGTGCTG	.	PASS	Atlas-SNP
PODN	127435	hgsc.bcm.edu	37	1	53535478	53535478	+	Missense_Mutation	SNP	G	G	A	rs1288386	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	50	147	0	0.520833	0	G|0.629;A|0.371	0.371	strong	PODN,NS,carcinoma,+1,2	PODN	86	2	NM_153703	exon2	c.G95A	p.R32H	GGTTCCGTCAGCC	.	PASS	Atlas-SNP
XRCC6BP1	91419	hgsc.bcm.edu	37	12	58335626	58335626	+	Missense_Mutation	SNP	A	A	T	rs3751325	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	31	67	0	0.442857	0	A|0.640;T|0.360	0.360	strong	XRCC6BP1,NS,carcinoma,0,1	XRCC6BP1	22	1	NM_033276	exon1	c.A142T	p.S48C	TTCACCAGCAACC	.	PASS	Atlas-SNP
RIOK2	55781	hgsc.bcm.edu	37	5	96503523	96503523	+	Missense_Mutation	SNP	C	C	T	rs160632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	110	176	0	0.518868	0	C|0.439;T|0.561	0.561	strong	.	RIOK2	82	.	NM_001159749	exon8	c.G1045A	p.G349R	CTGACCCGTAAAC	.	PASS	Atlas-SNP
GYG2	8908	hgsc.bcm.edu	37	X	2779749	2779749	+	Missense_Mutation	SNP	C	C	T	rs17330993	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	20	41	0	1	0	C|0.987;0|0.003	.	strong	.	GYG2	39	.	NM_003918	exon9	c.C1117T	p.R373C	GAAGGACGCCGTT	.	PASS	Atlas-SNP
ITIH1	3697	hgsc.bcm.edu	37	3	52825912	52825912	+	Silent	SNP	C	C	A	rs7549	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	99	191	0	0.507692	0	C|0.941;A|0.059	0.059	strong	.	ITIH1	108	.	NM_002215	exon22	c.C2721A	p.V907V	TATCGTCCCCGAC	.	PASS	Atlas-SNP
CD6	923	hgsc.bcm.edu	37	11	60777073	60777073	+	Missense_Mutation	SNP	G	G	A	rs12360861	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	27	39	0	0.473684	0	G|0.878;A|0.122	0.122	strong	CD6_ENST00000313421,rectum,carcinoma,0,2	CD6	122	2	NM_006725	exon5	c.G811A	p.A271T	GGGGGCGCTGACC	.	PASS	Atlas-SNP
ARHGEF10	9639	hgsc.bcm.edu	37	8	1893773	1893773	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	71	112	0	0.510791	0	.	.	none	.	ARHGEF10	255	.	NM_014629	exon27	c.C3349A	p.H1117N	CTCAAGCACCTGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506271	195506271	+	Silent	SNP	A	A	T	rs77023345	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	117	281	0	0.717791	0	A|0.807;T|0.193	0.193	strong	.	MUC4	1505	.	NM_018406	exon2	c.T12180A	p.G4060G	GGCGTGACCTGTG	.	PASS	Atlas-SNP
MYCBPAP	84073	hgsc.bcm.edu	37	17	48595988	48595988	+	Missense_Mutation	SNP	G	G	C	rs8064455	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	65	129	0	0.496183	0	G|0.721;C|0.279	0.279	strong	.	MYCBPAP	135	.	NM_032133	exon5	c.G684C	p.E228D	AGAAGAGAAGAGA	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26749831	26749831	+	Silent	SNP	G	G	A	rs2230377	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	84	78	0	1	0	G|0.780;A|0.220	0.220	strong	.	ITPR2	270	.	NM_002223	exon31	c.C4239T	p.D1413D	GCAGTCGTCATGG	.	PASS	Atlas-SNP
NRG1	3084	hgsc.bcm.edu	37	8	32505633	32505633	+	Missense_Mutation	SNP	G	G	C	rs35641374	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	60	98	0	0.508475	0	G|0.976;C|0.024	0.024	strong	.	NRG1	260	.	NM_013959	exon1	c.G397C	p.V133L	TCAGCTGTGTGGG	.	PASS	Atlas-SNP
TMEM43	79188	hgsc.bcm.edu	37	3	14174427	14174427	+	Missense_Mutation	SNP	A	A	T	rs4685076	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	98	160	0	0.56	0	A|0.701;T|0.299	0.299	strong	.	TMEM43	33	.	NM_024334	exon6	c.A504T	p.K168N	CCACAAAAACCCC	.	PASS	Atlas-SNP
ARID4A	5926	hgsc.bcm.edu	37	14	58768333	58768333	+	Silent	SNP	C	C	T	rs45562837	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	63	113	0	0.538462	0	C|0.947;T|0.053	0.053	strong	ARID4A_ENST00000355431,colon,carcinoma,0,2	ARID4A	222	2	NM_002892	exon3	c.C42T	p.T14T	GGGAACCGATGTC	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17111297	17111297	+	Missense_Mutation	SNP	A	A	G	rs4808551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	87	93	0	1	0	A|0.229;G|0.771	0.771	strong	.	CPAMD8	192	.	NM_015692	exon10	c.T935C	p.M312T	TTGATCATTAAGG	.	PASS	Atlas-SNP
ITLN1	55600	hgsc.bcm.edu	37	1	160851826	160851826	+	Missense_Mutation	SNP	A	A	T	rs2274907	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	333	209	248	0	0.627628	0	A|0.411;N|0.001	.	strong	.	ITLN1	45	.	NM_017625	exon4	c.T326A	p.V109D	GGGTAGACTGCTT	.	PASS	Atlas-SNP
BPI	671	hgsc.bcm.edu	37	20	36932676	36932676	+	Silent	SNP	G	G	C	rs1341024	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	85	114	0	1	0	G|0.549;C|0.451	0.451	strong	.	BPI	67	.	NM_001725	exon1	c.G63C	p.L21L	GGTGCTGGTCGCC	.	PASS	Atlas-SNP
DNAJC2	27000	hgsc.bcm.edu	37	7	102953544	102953544	+	Silent	SNP	T	T	C	rs61749913	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	54	76	0	0.586957	0	T|0.982;C|0.018	0.018	strong	.	DNAJC2	46	.	NM_014377	exon16	c.A1641G	p.P547P	TGTATATGGACCT	.	PASS	Atlas-SNP
WLS	79971	hgsc.bcm.edu	37	1	68624878	68624878	+	Silent	SNP	C	C	T	rs3748705	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	30	118	0	0.340909	0	C|0.664;T|0.336	0.336	strong	.	WLS	97	.	NM_024911	exon3	c.G432A	p.A144A	AGCAAACGCGTCA	.	PASS	Atlas-SNP
ZNF813	126017	hgsc.bcm.edu	37	19	53990002	53990002	+	Silent	SNP	G	G	A	rs77810160	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	35	81	0	0.555556	0	G|0.500;A|0.500	0.500	strong	.	ZNF813	81	.	NM_001004301	exon3	c.G132A	p.L44L	GAACCTGGTCTCC	.	PASS	Atlas-SNP
F13A1	2162	hgsc.bcm.edu	37	6	6222382	6222382	+	Silent	SNP	T	T	G	rs5981	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	79	99	0	0.451429	0	T|0.868;G|0.132	0.132	strong	.	F13A1	135	.	NM_000129	exon8	c.A996C	p.P332P	TCTTGCTGGTATT	.	PASS	Atlas-SNP
ACPP	55	hgsc.bcm.edu	37	3	132075554	132075554	+	Silent	SNP	T	T	C	rs3181784	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	58	136	1	0.5	0.00735294	T|0.657;C|0.343	0.343	strong	ACPP_ENST00000351273,NS,carcinoma,0,4	ACPP	118	4	NM_001099	exon10	c.T993C	p.Y331Y	GTACTATCGGAAT	.	scavenged	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150943085	150943085	+	Silent	SNP	G	G	A	rs2304054	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	67	174	0	0.34359	0	G|0.540;A|0.460	0.460	strong	.	FAT2	465	.	NM_001447	exon2	c.C3375T	p.I1125I	AACCTCGATGTAG	.	PASS	Atlas-SNP
IPO4	79711	hgsc.bcm.edu	37	14	24654489	24654489	+	Silent	SNP	T	T	C	rs2025258	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	80	166	0	0.457143	0	T|0.551;C|0.448	0.448	strong	.	IPO4	74	.	NM_024658	exon14	c.A1308G	p.V436V	TGGCATTACCTCC	.	PASS	Atlas-SNP
AMER3	205147	hgsc.bcm.edu	37	2	131520178	131520178	+	Missense_Mutation	SNP	C	C	G	rs77687733	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	40	50	0	0.952381	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
DRD3	1814	hgsc.bcm.edu	37	3	113890815	113890815	+	Missense_Mutation	SNP	C	C	T	rs6280	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	118	100	0	0.991597	0	C|0.492;T|0.508	0.508	strong	.	DRD3	76	.	NM_033663	exon2	c.G25A	p.G9S	GGTGGCCACTCAG	.	PASS	Atlas-SNP
E2F7	144455	hgsc.bcm.edu	37	12	77419341	77419341	+	Missense_Mutation	SNP	A	A	T	rs310831	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	53	89	0	0.5	0	A|0.918;T|0.082	0.082	strong	.	E2F7	201	.	NM_203394	exon12	c.T2562A	p.H854Q	CACCTGATGTAAT	.	PASS	Atlas-SNP
FHOD3	80206	hgsc.bcm.edu	37	18	34289118	34289118	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	89	248	0	0.395556	0	.	.	none	FHOD3,NS,carcinoma,+1,1	FHOD3	210	1	NM_025135	exon15	c.G1772T	p.G591V	GGGCGGGGCAGGT	.	PASS	Atlas-SNP
HCAR1	27198	hgsc.bcm.edu	37	12	123214372	123214372	+	Missense_Mutation	SNP	G	G	A	rs61742326	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	14	22	0	0.518519	0	G|0.996;A|0.004	0.004	strong	.	HCAR1	21	.	NM_032554	exon1	c.C515T	p.S172L	TTGGCCGACTCCA	.	PASS	Atlas-SNP
PIK3R5	23533	hgsc.bcm.edu	37	17	8792093	8792093	+	Silent	SNP	G	G	A	rs16957702	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	33	32	0	1	0	G|0.734;A|0.266	0.266	strong	.	PIK3R5	79	.	NM_001142633	exon10	c.C1011T	p.D337D	GTGCCCGTCAGTT	.	PASS	Atlas-SNP
SUSD1	64420	hgsc.bcm.edu	37	9	114804173	114804173	+	Silent	SNP	G	G	A	rs3849117	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	115	111	0	0.991379	0	G|0.943;A|0.057	0.057	strong	.	SUSD1	51	.	NM_022486	exon16	c.C2217T	p.L739L	GAATGTGAGAATG	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62200576	62200576	+	Missense_Mutation	SNP	G	G	A	rs6090457	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	26	10	38	0	0.384615	0	G|0.840;A|0.160	0.160	strong	.	.	.	.	NM_001037335	exon5	c.C1013T	p.S338L	GTTGGTGAGATGG	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129907489	129907489	+	Missense_Mutation	SNP	G	G	A	rs2853344	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	378	195	353	0	0.515873	0	G|0.941;A|0.059	0.059	strong	.	MKI67	363	.	NM_002417	exon13	c.C2615T	p.A872V	CTGTTTGCAGTGG	.	PASS	Atlas-SNP
APOA4	337	hgsc.bcm.edu	37	11	116693871	116693871	+	Missense_Mutation	SNP	C	C	T	rs12721041	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	77	121	0	0.538462	0	C|0.990;T|0.010	0.010	strong	.	APOA4	51	.	NM_000482	exon1	c.G37A	p.V13M	CAGCCACCAGGGC	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14776140	14776140	+	Missense_Mutation	SNP	C	C	T	rs10961700	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	54	174	0	0.4	0	C|0.917;T|0.083	0.083	strong	FREM1,right_upper_lobe,carcinoma,+2,1	FREM1	261	1	NM_144966	exon26	c.G4504A	p.V1502M	TGTCCACAGTCTC	.	PASS	Atlas-SNP
EPHA8	2046	hgsc.bcm.edu	37	1	22902772	22902772	+	Silent	SNP	C	C	T	rs56218493	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	114	221	0	0.537736	0	C|0.911;T|0.089	0.089	strong	.	EPHA8	221	.	NM_020526	exon3	c.C222T	p.N74N	TTGCAACGTCATG	.	PASS	Atlas-SNP
HAGHL	84264	hgsc.bcm.edu	37	16	778024	778024	+	Silent	SNP	T	T	C	rs1406814	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	38	96	0	0.447059	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
FRMPD2	143162	hgsc.bcm.edu	37	10	49431171	49431171	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	51	83	0	0.607143	0	.	.	none	.	FRMPD2	157	.	NM_001018071	exon11	c.G1311A	p.L437L	CTGGAGCAGCCCA	.	PASS	Atlas-SNP
NUCB1	4924	hgsc.bcm.edu	37	19	49407660	49407660	+	Silent	SNP	G	G	A	rs1058483	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	55	91	0	0.466102	0	G|0.903;A|0.097	0.097	strong	NUCB1,NS,carcinoma,+1,1	NUCB1	44	1	NM_006184	exon3	c.G192A	p.T64T	GGAGACGGATGGG	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15808876	15808876	+	Missense_Mutation	SNP	C	C	G	rs113964173	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	76	127	0	0.5	0	C|0.993;G|0.007	0.007	strong	.	MYH11	520	.	NM_001040114	exon41	c.G5697C	p.E1899D	CTGGGACTCCTCC	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549584	32549584	+	Silent	SNP	C	C	T	rs200078051		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	368	36	183	0	0.0978261	0	.	.	weak	.	HLA-DRB1	41	.	NM_002124	exon3	c.G402A	p.K134K	CTGGGTCTTTGAA	.	PASS	Atlas-SNP
LRRCC1	85444	hgsc.bcm.edu	37	8	86057707	86057707	+	Silent	SNP	A	A	G	rs62525428	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	113	250	0	0.476793	0	A|0.926;G|0.074	0.074	strong	.	LRRCC1	212	.	NM_033402	exon19	c.A3060G	p.Q1020Q	TAAGCAACTTGCT	.	PASS	Atlas-SNP
OSTF1	26578	hgsc.bcm.edu	37	9	77752510	77752510	+	Silent	SNP	C	C	T	rs2273769	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	75	211	0	0.433526	0	C|0.861;T|0.139	0.139	strong	OSTF1,colon,carcinoma,+2,1	OSTF1	12	1	NM_012383	exon8	c.C465T	p.I155I	AGATATCGTCCAG	.	PASS	Atlas-SNP
HIVEP1	3096	hgsc.bcm.edu	37	6	12122174	12122174	+	Missense_Mutation	SNP	A	A	G	rs2228210	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	127	112	0	0.984496	0	A|0.754;C|0.002	.	strong	.	HIVEP1	242	.	NM_002114	exon4	c.A2146G	p.T716A	GTCACCACGTCAA	.	PASS	Atlas-SNP
SLC2A11	66035	hgsc.bcm.edu	37	22	24224655	24224655	+	Missense_Mutation	SNP	G	G	A	rs9608213	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	17	30	0	0.548387	0	G|0.678;A|0.322	0.322	strong	.	SLC2A11	32	.	NM_030807	exon8	c.G716A	p.R239Q	TACGGCGGCTCCG	.	PASS	Atlas-SNP
PRKCB	5579	hgsc.bcm.edu	37	16	23847575	23847575	+	Silent	SNP	C	C	A	rs75964872	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	48	76	0	0.533333	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
NHSL2	340527	hgsc.bcm.edu	37	X	71363415	71363415	+	Silent	SNP	C	C	T	rs6624597	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	104	235	1	1	0.00425532	C|0.090;T|0.910	0.910	strong	.	NHSL2	148	.	NM_001013627	exon8	c.C3669T	p.P1223P	TAACCCCAGTACC	.	PASS	Atlas-SNP
NKAPL	222698	hgsc.bcm.edu	37	6	28228342	28228342	+	Missense_Mutation	SNP	A	A	G	rs1679709	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	29	55	0	0.508772	0	A|0.162;G|0.838	0.838	strong	.	NKAPL	72	.	NM_001007531	exon1	c.A1193G	p.E398G	CAAAAGAGAAAGA	.	PASS	Atlas-SNP
ZNF812	729648	hgsc.bcm.edu	37	19	9800982	9800982	+	Silent	SNP	T	T	C	rs145446068	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	37	73	0	0.596774	0	T|0.998;C|0.002	0.002	strong	.	ZNF812	27	.	NM_001199814	exon6	c.A1197G	p.L399L	GGAATATAGAAAT	.	PASS	Atlas-SNP
ZKSCAN3	80317	hgsc.bcm.edu	37	6	28331127	28331127	+	Missense_Mutation	SNP	A	A	G	rs371085669	byfrequency;byhapmap;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	48	91	0	0.393443	0	A|0.648;G|0.352	0.352	alt	ZKSCAN3,NS,other,-2,1	ZKSCAN3	50	1	NM_024493	exon4	c.A598G	p.K200E	GAAGATAAAGTGG	.	PASS	Atlas-SNP
FAM214A	56204	hgsc.bcm.edu	37	15	52901638	52901638	+	Silent	SNP	T	T	C	rs3751614	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	101	114	0	1	0	T|0.560;C|0.440	0.440	strong	KIAA1370,NS,carcinoma,0,1	.	.	1	NM_019600	exon6	c.A1473G	p.Q491Q	CAAGTGTTGAGCA	.	PASS	Atlas-SNP
LPA	4018	hgsc.bcm.edu	37	6	161026197	161026197	+	Silent	SNP	G	G	A	rs117174672	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	32	60	0	0.421053	0	G|0.971;A|0.029	0.029	strong	LPA,NS,carcinoma,0,1	LPA	237	1	NM_005577	exon19	c.C2826T	p.H942H	ATTTCCGTGGTAG	.	PASS	Atlas-SNP
AP3B1	8546	hgsc.bcm.edu	37	5	77423965	77423965	+	Silent	SNP	A	A	C	rs115892142	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	21	35	0	0.466667	0	A|0.998;C|0.002	0.002	strong	.	AP3B1	94	.	NM_003664	exon17	c.T1857G	p.L619L	GGTGCCAAGCTGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513519	195513519	+	Silent	SNP	A	A	T	rs201585392	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	932	168	641	0	0.180258	0	A|0.964;T|0.036	0.036	strong	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.T4932A	p.G1644G	GGCGTGACCTGTG	.	PASS	Atlas-SNP
PFKL	5211	hgsc.bcm.edu	37	21	45732116	45732116	+	Silent	SNP	C	C	T	rs1057034	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	319	317	237	1	0.99373	0.00421941	C|0.555;T|0.445	0.445	strong	.	PFKL	65	.	NM_002626	exon4	c.C366T	p.L122L	CAGCCTCACAGGT	.	PASS	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	37	10	26355906	26355906	+	Missense_Mutation	SNP	G	G	A	rs3824700	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	37	77	0	0.480519	0	G|0.559;A|0.441	0.441	strong	.	MYO3A	371	.	NM_017433	exon11	c.G956A	p.R319H	ACAGACGTGAACG	.	PASS	Atlas-SNP
ZNF664	144348	hgsc.bcm.edu	37	12	124496864	124496864	+	Missense_Mutation	SNP	T	T	G	rs80197353	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	78	137	0	0.349776	0	T|0.928;G|0.072	0.072	strong	.	ZNF664	27	.	NM_152437	exon5	c.T173G	p.V58G	AGAAGGTCTATAA	.	PASS	Atlas-SNP
TMTC1	83857	hgsc.bcm.edu	37	12	29736480	29736480	+	Silent	SNP	A	A	G	rs2113879	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	110	164	0	0.544554	0	A|0.662;G|0.338	0.338	strong	.	TMTC1	147	.	NM_001193451	exon8	c.T1278C	p.H426H	CAGTCCATGCACA	.	PASS	Atlas-SNP
RTN3	10313	hgsc.bcm.edu	37	11	63449125	63449125	+	Missense_Mutation	SNP	C	C	A	rs11551944	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	31	69	0	0.455882	0	C|0.903;A|0.097	0.097	strong	RTN3_ENST00000356000,NS,carcinoma,0,3	RTN3	104	3	NM_201428	exon1	c.C17A	p.A6E	CGTCGGCGGCCAC	.	PASS	Atlas-SNP
ANKZF1	55139	hgsc.bcm.edu	37	2	220100553	220100553	+	Silent	SNP	C	C	A	rs150402081	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	99	185	0	0.497487	0	C|0.982;A|0.018	0.018	strong	.	ANKZF1	45	.	NM_001042410	exon12	c.C1927A	p.R643R	CGTGAACGAGAAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	29	47	0	0.39726	0	T|0.736;C|0.264	0.264	strong	.	TYRO3	169	.	NM_006293	exon6	c.T747C	p.A249A	AGGTGCTGATGGC	.	PASS	Atlas-SNP
OR5AS1	219447	hgsc.bcm.edu	37	11	55798259	55798259	+	Missense_Mutation	SNP	G	G	T	rs12224086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	272	153	260	0	0.5625	0	A|0.000;G|0.900;T|0.099	0.099	strong	OR5AS1,NS,carcinoma,+1,5	OR5AS1	121	5	NM_001001921	exon1	c.G365T	p.R122L	ATGACCGCTATGC	.	PASS	Atlas-SNP
PCDHA10	56139	hgsc.bcm.edu	37	5	140236950	140236950	+	Missense_Mutation	SNP	C	C	G	rs251362	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	78	267	0	0.639344	0	C|0.495;G|0.505	0.505	strong	PCDHA10_ENST00000307360,rectum,carcinoma,0,2	PCDHA10	358	2	NM_031859	exon1	c.C1317G	p.S439R	GGCCAGCGTGTCT	.	PASS	Atlas-SNP
NBPF14	25832	hgsc.bcm.edu	37	1	148010987	148010987	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	743	22	500	0	0.0296097	0	.	.	none	NBPF14,NS,carcinoma,0,3	NBPF14	107	3	NM_015383	exon14	c.A1635G	p.S545S	AGGAGTTGAATAA	.	scavenged	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	37	3	184037523	184037523	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	392	230	315	0	0.586735	0	.	.	none	.	EIF4G1	151	.	NM_001194946	exon8	c.C492T	p.G164G	CACTGGCGTGGCC	.	PASS	Atlas-SNP
GPATCH8	23131	hgsc.bcm.edu	37	17	42477385	42477385	+	Missense_Mutation	SNP	T	T	C	rs61744303	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	63	140	0	0.411765	0	T|0.989;C|0.011	0.011	strong	.	GPATCH8	114	.	NM_001002909	exon8	c.A2060G	p.H687R	CGTTTGTGTTTGC	.	PASS	Atlas-SNP
CCDC108	255101	hgsc.bcm.edu	37	2	219893035	219893035	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	301	5	223	0	0.0166113	0	.	.	none	CCDC108,colon,carcinoma,0,1	CCDC108	208	1	NM_194302	exon12	c.G1739A	p.R580H	TGTGTGCGGTACC	.	scavenged	Atlas-SNP
LMF1	64788	hgsc.bcm.edu	37	16	1004605	1004605	+	Silent	SNP	A	A	G	rs12448005	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	22	65	0	0.44	0	A|0.955;G|0.045	0.045	strong	LMF1,NS,carcinoma,0,4	LMF1	42	4	NM_022773	exon2	c.T255C	p.L85L	GCAGGGAAGCAGC	.	PASS	Atlas-SNP
CCDC61	729440	hgsc.bcm.edu	37	19	46520069	46520069	+	Silent	SNP	C	C	T	rs144277506	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	47	69	0	0.61039	0	C|0.989;T|0.011	0.011	strong	.	CCDC61	32	.	NM_001267723	exon10	c.C1209T	p.R403R	TAACCGCTCCCGA	.	PASS	Atlas-SNP
CERS4	79603	hgsc.bcm.edu	37	19	8326866	8326866	+	Missense_Mutation	SNP	C	C	T	rs17160348	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	41	85	0	0.482353	0	C|0.852;N|0.001	.	strong	LASS4,caecum,carcinoma,0,1	.	.	1	NM_024552	exon12	c.C1058T	p.A353V	AGGAGGCGGCGGC	.	PASS	Atlas-SNP
PINX1	54984	hgsc.bcm.edu	37	8	10689212	10689212	+	Silent	SNP	C	C	T	rs12375394	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	51	84	0	0.476636	0	C|0.884;T|0.116	0.116	strong	.	PINX1	38	.	NM_017884	exon4	c.G264A	p.L88L	TTCGGCCAGAAGC	.	PASS	Atlas-SNP
PLA2G4D	283748	hgsc.bcm.edu	37	15	42373810	42373810	+	Missense_Mutation	SNP	G	G	C	rs11635685	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	145	145	0	0.993151	0	G|0.713;C|0.287	0.287	strong	.	PLA2G4D	72	.	NM_178034	exon11	c.C824G	p.P275R	TCCTCAGGGCTGT	.	PASS	Atlas-SNP
ATP8B3	148229	hgsc.bcm.edu	37	19	1808275	1808275	+	Silent	SNP	G	G	A	rs61739534	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	107	145	0	0.509524	0	G|0.968;A|0.032	0.032	strong	.	ATP8B3	108	.	NM_138813	exon5	c.C462T	p.Y154Y	CTGCTCGTACAGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179658175	179658175	+	Missense_Mutation	SNP	C	C	T	rs72647851	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	83	194	0	0.434555	0	C|0.985;T|0.015	0.015	strong	TTN_ENST00000360870,right_upper_lobe,carcinoma,+1,6	TTN	18412	6	NM_001267550	exon9	c.G1492A	p.V498I	TAATTACTTCTTT	.	PASS	Atlas-SNP
CCDC176	80127	hgsc.bcm.edu	37	14	74523949	74523949	+	Silent	SNP	G	G	A	rs3742808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	49	95	0	0.532609	0	G|0.755;A|0.245	0.245	strong	.	.	.	.	NM_025057	exon11	c.G1566A	p.Q522Q	ACCTCAGGAGTCT	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954754	30954754	+	Missense_Mutation	SNP	G	G	A	rs9262365	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	4	199	8	0.0160643	0.040201	G|0.901;A|0.099	0.099	strong	MUC21,NS,carcinoma,0,1	MUC21	98	1	NM_001010909	exon2	c.G802A	p.G268S	GGGGCCGGCACAG	.	scavenged	Atlas-SNP
ATP8B3	148229	hgsc.bcm.edu	37	19	1784944	1784944	+	Silent	SNP	A	A	G	rs3764606	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	18	42	0	0.391304	0	A|0.589;G|0.411	0.411	strong	.	ATP8B3	108	.	NM_138813	exon28	c.T3534C	p.Y1178Y	GTCGGCATCTGGG	.	PASS	Atlas-SNP
CA5A	763	hgsc.bcm.edu	37	16	87938418	87938418	+	Missense_Mutation	SNP	C	C	T	rs138476706		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	496	254	431	1	0.512097	0.00232019	C|1.000;T|0.000	0.000	weak	.	CA5A	32	.	NM_001739	exon3	c.G433A	p.V145M	CGTCCACTGTGTG	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	20112417	20112417	+	Silent	SNP	A	A	C	rs2243624	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	52	64	0	0.65	0	A|0.618;C|0.382	0.382	strong	.	NAV2	255	.	NM_001244963	exon29	c.A5682C	p.S1894S	AATTTCAGAATGC	.	PASS	Atlas-SNP
TH	7054	hgsc.bcm.edu	37	11	2188238	2188238	+	Silent	SNP	C	C	T	rs6357	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	103	135	0	0.962617	0	C|0.798;T|0.202	0.202	strong	.	TH	43	.	NM_199292	exon8	c.G813A	p.K271K	GAGGCCCTTCAGC	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28412872	28412872	+	Silent	SNP	G	G	A	rs61756152	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	61	122	0	0.491935	0	G|0.885;A|0.115	0.115	strong	.	HERC2	501	.	NM_004667	exon68	c.C10515T	p.A3505A	GCTTGCGGCTCCC	.	PASS	Atlas-SNP
CHRNA4	1137	hgsc.bcm.edu	37	20	61981104	61981104	+	Silent	SNP	C	C	T	rs1044397	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	14	33	0	0.608696	0	C|0.587;T|0.413	0.413	strong	.	CHRNA4	98	.	NM_000744	exon5	c.G1659A	p.A553A	GGGCGGCGCTTTG	.	PASS	Atlas-SNP
NOC3L	64318	hgsc.bcm.edu	37	10	96114835	96114835	+	Missense_Mutation	SNP	G	G	A	rs12572897	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	66	142	0	0.5	0	G|0.847;A|0.153	0.153	strong	.	NOC3L	67	.	NM_022451	exon6	c.C581T	p.P194L	TGAATAGGATCTT	.	PASS	Atlas-SNP
PMF1	11243	hgsc.bcm.edu	37	1	156206121	156206121	+	Missense_Mutation	SNP	G	G	A	rs1052067	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	347	208	290	1	0.599424	0.00344828	G|0.788;A|0.212	0.212	strong	PMF1,NS,carcinoma,0,1	PMF1	12	1	NM_001199654	exon4	c.G417A	p.M139I	TGTTATGGCACCC	.	PASS	Atlas-SNP
IQCB1	9657	hgsc.bcm.edu	37	3	121500697	121500697	+	Missense_Mutation	SNP	G	G	A	rs11920543	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	50	77	1	0.537634	0.012987	G|0.990;A|0.010	0.010	strong	IQCB1,caecum,carcinoma,+1,2	IQCB1	50	2	NM_001023570	exon13	c.C1303T	p.R435C	TCTTACGGCACTT	.	scavenged	Atlas-SNP
FUT8	2530	hgsc.bcm.edu	37	14	66136163	66136163	+	Missense_Mutation	SNP	C	C	A	rs35949016	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	107	175	0	0.529703	0	C|0.875;A|0.125	0.125	strong	FUT8,NS,carcinoma,0,1	FUT8	101	1	NM_178155	exon7	c.C800A	p.T267K	CATGCACAGACAG	.	PASS	Atlas-SNP
ZNF665	79788	hgsc.bcm.edu	37	19	53667913	53667913	+	Silent	SNP	A	A	G	rs12459469	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	45	79	0	0.478723	0	A|0.488;G|0.512	0.512	strong	.	ZNF665	136	.	NM_024733	exon4	c.T1830C	p.N610N	ATGTGAATTTTGA	.	PASS	Atlas-SNP
ACCS	84680	hgsc.bcm.edu	37	11	44101118	44101118	+	Silent	SNP	C	C	T	rs7950395	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	97	203	0	0.464115	0	C|0.877;T|0.123	0.123	strong	.	ACCS	64	.	NM_032592	exon10	c.C871T	p.L291L	TACATGCTGTCCG	.	PASS	Atlas-SNP
KLHDC7B	113730	hgsc.bcm.edu	37	22	50987175	50987175	+	Missense_Mutation	SNP	G	G	T	rs116500907	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	11	6	10	0	0.545455	0	G|0.958;T|0.042	0.042	strong	.	KLHDC7B	39	.	NM_138433	exon1	c.G580T	p.V194L	TGGGGGGTGGTGG	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145302775	145302775	+	Missense_Mutation	SNP	T	T	G	rs71241610		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	17	183	9	0.0762332	0.0491803	T|0.500;G|0.500	0.500	weak	NBPF10_ENST00000369338,NS,carcinoma,0,2	NBPF10	221	2	NM_001039703	exon8	c.T1213G	p.Y405D	ACTCCGTATGAGC	.	scavenged	Atlas-SNP
NPAS4	266743	hgsc.bcm.edu	37	11	66188761	66188761	+	Silent	SNP	G	G	T	rs77600363	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	83	204	0	0.461111	0	G|0.824;T|0.176	0.176	strong	.	NPAS4	133	.	NM_178864	exon1	c.G111T	p.L37L	CCGGCTGTCCTAC	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42150888	42150888	+	Missense_Mutation	SNP	G	G	A	rs890503	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	77	141	0	0.546099	0	G|0.757;T|0.009	.	strong	SPTBN5,NS,carcinoma,0,3	SPTBN5	171	3	NM_016642	exon49	c.C8033T	p.T2678I	ATGGCTGTGTCCA	.	PASS	Atlas-SNP
CTCFL	140690	hgsc.bcm.edu	37	20	56087800	56087800	+	Missense_Mutation	SNP	T	T	C	rs41305825	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	46	134	0	0.422018	0	T|0.954;C|0.046	0.046	strong	.	CTCFL	97	.	NM_001269044	exon7	c.A1339G	p.M447V	TGCGCATATGCAC	.	PASS	Atlas-SNP
CNTN6	27255	hgsc.bcm.edu	37	3	1424850	1424850	+	Silent	SNP	T	T	G	rs2291100	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	88	180	0	0.468085	0	T|0.724;G|0.276	0.276	strong	.	CNTN6	245	.	NM_014461	exon18	c.T2391G	p.S797S	CTACTCTGGGGAA	.	PASS	Atlas-SNP
C9orf131	138724	hgsc.bcm.edu	37	9	35043291	35043291	+	Missense_Mutation	SNP	G	G	T	rs615474	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	97	173	0	0.524324	0	G|0.380;T|0.620	0.620	strong	C9orf131,NS,carcinoma,0,1	C9orf131	71	1	NM_203299	exon2	c.G665T	p.W222L	TGAAGTGGTCTGT	.	PASS	Atlas-SNP
PRKCQ	5588	hgsc.bcm.edu	37	10	6553071	6553071	+	Silent	SNP	T	T	C	rs17555072	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	102	231	0	0.449339	0	T|0.958;C|0.042	0.042	strong	.	PRKCQ	113	.	NM_006257	exon3	c.A204G	p.R68R	CATGACTCTTCCC	.	PASS	Atlas-SNP
PPA2	27068	hgsc.bcm.edu	37	4	106317429	106317429	+	Missense_Mutation	SNP	C	C	G	rs13787	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	155	243	1	1	0.00411523	C|0.611;G|0.389	0.389	strong	.	PPA2	23	.	NM_176869	exon9	c.G846C	p.K282N	ATTACACTTCTTC	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388378	1388378	+	Missense_Mutation	SNP	T	T	C	rs55884223	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	77	271	8	0.330472	0.0295203	T|0.993;C|0.007	0.007	strong	CRIPAK,NS,carcinoma,-1,1	CRIPAK	185	1	NM_175918	exon1	c.T79C	p.C27R	TGCTCATGTGCCC	.	scavenged	Atlas-SNP
ZFP64	55734	hgsc.bcm.edu	37	20	50769379	50769379	+	Missense_Mutation	SNP	C	C	T	rs3746414	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	63	131	0	0.552632	0	C|0.848;T|0.152	0.152	strong	.	ZFP64	240	.	NM_018197	exon6	c.G1352A	p.S451N	CTCTCACTGTACT	.	PASS	Atlas-SNP
C1orf141	400757	hgsc.bcm.edu	37	1	67558763	67558763	+	Silent	SNP	A	A	G	rs41299551	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	35	113	0	0.402299	0	A|0.901;G|0.099	0.099	strong	C1orf141,NS,carcinoma,0,1	C1orf141	58	1	NM_001276351	exon8	c.T1128C	p.Y376Y	ATATATATATTTA	.	PASS	Atlas-SNP
RPTOR	57521	hgsc.bcm.edu	37	17	78921117	78921117	+	Silent	SNP	C	C	T	rs4969231	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	88	125	0	0.578947	0	C|0.763;T|0.237	0.237	strong	RPTOR,colon,carcinoma,0,1	RPTOR	122	1	NM_020761	exon27	c.C3231T	p.N1077N	TCTGAACGGCCAG	.	PASS	Atlas-SNP
AQPEP	0	hgsc.bcm.edu	37	5	115298475	115298475	+	Missense_Mutation	SNP	T	T	C	rs12520255	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	59	95	0	0.967213	0	T|0.206;C|0.794	0.794	strong	.	.	.	.	NM_173800	exon1	c.T161C	p.L54S	GGGACTTGGAAGC	.	PASS	Atlas-SNP
LILRB4	11006	hgsc.bcm.edu	37	19	55179184	55179184	+	Silent	SNP	T	T	C	rs61743358	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	493	58	468	0	0.117647	0	T|0.633;C|0.367	0.367	strong	.	LILRB4	86	.	NM_006847	exon11	c.T1140C	p.S380S	ACTGTCTGGGGAA	.	PASS	Atlas-SNP
NRG1	3084	hgsc.bcm.edu	37	8	32453358	32453358	+	Missense_Mutation	SNP	G	G	A	rs3924999	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	16	26	0	0.470588	0	G|0.635;A|0.365	0.365	strong	NRG1_ENST00000521670,NS,carcinoma,+1,3	NRG1	260	3	NM_013962	exon2	c.G758A	p.R253Q	CTCCCCGATTGAA	.	PASS	Atlas-SNP
SORCS2	57537	hgsc.bcm.edu	37	4	7735111	7735111	+	Silent	SNP	A	A	G	rs79532786	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	97	189	10	0.497436	0.0529101	A|0.965;G|0.035	0.035	strong	SORCS2,NS,carcinoma,0,1	SORCS2	98	1	NM_020777	exon24	c.A3171G	p.G1057G	AGGCGGAGTCCGG	.	scavenged	Atlas-SNP
SLCO1B1	10599	hgsc.bcm.edu	37	12	21331940	21331940	+	Missense_Mutation	SNP	G	G	A	rs374113543		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	20	74	0	0.357143	0	.	.	weak	.	SLCO1B1	151	.	NM_006446	exon7	c.G713A	p.G238E	ATATTGGATATGT	.	PASS	Atlas-SNP
TNKS	8658	hgsc.bcm.edu	37	8	9609331	9609331	+	Silent	SNP	G	G	A	rs13265931	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	37	48	0	0.521127	0	G|0.844;A|0.156	0.156	strong	.	TNKS	198	.	NM_003747	exon19	c.G3045A	p.A1015A	CGCCGCGGGAACA	.	PASS	Atlas-SNP
FER1L5	90342	hgsc.bcm.edu	37	2	97368800	97368800	+	Missense_Mutation	SNP	C	C	A	rs373937760		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	96	184	0	0.468293	0	.	.	weak	.	FER1L5	113	.	NM_001113382	exon48	c.C5591A	p.P1864H	TCTCCCCCGACGA	.	PASS	Atlas-SNP
ZBTB32	27033	hgsc.bcm.edu	37	19	36207510	36207510	+	Silent	SNP	G	G	A	rs1052491	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	22	49	0	0.564103	0	G|0.910;A|0.090	0.090	strong	.	ZBTB32	33	.	NM_014383	exon6	c.G1320A	p.L440L	CAGCCTGGCCTCC	.	PASS	Atlas-SNP
USP32	84669	hgsc.bcm.edu	37	17	58285542	58285542	+	Missense_Mutation	SNP	G	G	A	rs76478630		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	562	167	590	1	0.297153	0.00169492	.	.	weak	USP32,NS,malignant_melanoma,0,2	USP32	128	2	NM_032582	exon24	c.C2803T	p.R935W	CATACCGTACAGG	.	scavenged	Atlas-SNP
RND1	27289	hgsc.bcm.edu	37	12	49255798	49255798	+	Silent	SNP	G	G	C	rs1565933	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	67	142	0	0.485507	0	G|0.576;C|0.424	0.424	strong	.	RND1	26	.	NM_014470	exon3	c.C312G	p.L104L	CTTCTTGAGTGCG	.	PASS	Atlas-SNP
BTLA	151888	hgsc.bcm.edu	37	3	112185025	112185025	+	Missense_Mutation	SNP	G	G	A	rs9288952	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	198	210	0	1	0	G|0.301;A|0.699	0.699	strong	.	BTLA	22	.	NM_181780	exon5	c.C800T	p.P267L	GAGTTCGGTCCAA	.	PASS	Atlas-SNP
C2orf42	54980	hgsc.bcm.edu	37	2	70377653	70377653	+	Silent	SNP	G	G	A	rs12989348	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	31	70	0	0.516667	0	G|0.920;A|0.080	0.080	strong	.	C2orf42	30	.	NM_017880	exon10	c.C1560T	p.I520I	CCACTCGATGATG	.	PASS	Atlas-SNP
ENTPD4	9583	hgsc.bcm.edu	37	8	23292985	23292985	+	Silent	SNP	A	A	G	rs3736652	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	36	70	0	0.529412	0	A|0.884;G|0.116	0.116	strong	ENTPD4,NS,carcinoma,0,1	ENTPD4	56	1	NM_004901	exon11	c.T1380C	p.Y460Y	TGCACAATAATCC	.	PASS	Atlas-SNP
FBXO36	130888	hgsc.bcm.edu	37	2	230861519	230861519	+	Missense_Mutation	SNP	G	G	T	rs1035834	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	103	210	0	0.434599	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
OR10P1	121130	hgsc.bcm.edu	37	12	56031318	56031318	+	Missense_Mutation	SNP	A	A	T	rs76940436	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	52	91	0	0.504854	0	A|0.985;T|0.015	0.015	strong	.	OR10P1	48	.	NM_206899	exon1	c.A643T	p.I215F	TCTCTGATTGTCA	.	PASS	Atlas-SNP
RNF207	388591	hgsc.bcm.edu	37	1	6279370	6279370	+	Missense_Mutation	SNP	G	G	C	rs846111	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	127	205	0	0.616505	0	G|0.803;C|0.197	0.197	strong	RNF207,caecum,carcinoma,0,2	RNF207	45	2	NM_207396	exon18	c.G1808C	p.G603A	CGAACGGCCTCTC	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152187437	152187437	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1275	110	366	1	0.0862745	0.00273224	.	.	none	HRNR,NS,carcinoma,0,1	HRNR	403	1	NM_001009931	exon3	c.T6668C	p.V2223A	CCAAAGACAGAAG	.	scavenged	Atlas-SNP
TNFRSF8	943	hgsc.bcm.edu	37	1	12164437	12164437	+	Silent	SNP	C	C	T	rs2230622	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	62	152	0	0.521008	0	C|0.611;A|0.050	.	strong	.	TNFRSF8	70	.	NM_001243	exon4	c.C270T	p.D90D	CTTAGACGACCTC	.	PASS	Atlas-SNP
ASIC2	40	hgsc.bcm.edu	37	17	31618732	31618732	+	Silent	SNP	A	A	G	rs9893935	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	73	109	0	0.986486	0	A|0.468;G|0.532	0.532	strong	ACCN1,NS,carcinoma,0,2	.	.	2	NM_183377	exon1	c.T402C	p.T134T	GCACACAGTGACG	.	PASS	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4458598	4458598	+	Missense_Mutation	SNP	G	G	C	rs3809849	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	25	64	0	0.409836	0	G|0.795;C|0.205	0.205	strong	.	MYBBP1A	69	.	NM_014520	exon1	c.C22G	p.Q8E	TCGGCTGGGCGGG	.	PASS	Atlas-SNP
DDR1	780	hgsc.bcm.edu	37	6	30864829	30864829	+	Silent	SNP	T	T	C	rs1049623	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	99	220	0	0.392857	0	T|0.539;C|0.461	0.461	strong	DDR1_ENST00000376575,NS,adenoma,0,3	DDR1	213	3	NM_013994	exon13	c.T1908C	p.V636V	TCTGGTTAGTCTT	.	PASS	Atlas-SNP
HNRNPCL1	343069	hgsc.bcm.edu	37	1	12907843	12907843	+	Silent	SNP	T	T	G	rs2982093	bycluster;by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	357	16	414	1	0.0448179	0.00241546	T|1.000;|0.000	.	weak	HNRNPCL1,NS,carcinoma,-1,1	HNRNPCL1	68	1	NM_001013631	exon2	c.A300C	p.S100S	CGCTGCTGATCGT	.	scavenged	Atlas-SNP
ZMYM6	9204	hgsc.bcm.edu	37	1	35453651	35453651	+	Missense_Mutation	SNP	A	A	C	rs61744853	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	30	118	0	0.352941	0	A|0.986;C|0.014	0.014	weak	.	ZMYM6	110	.	NM_007167	exon16	c.T3032G	p.F1011C	TGAATAAAACAAT	.	PASS	Atlas-SNP
CC2D2A	57545	hgsc.bcm.edu	37	4	15569018	15569018	+	Silent	SNP	G	G	A	rs73125627	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	435	218	417	0	0.501149	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
RIPK4	54101	hgsc.bcm.edu	37	21	43161805	43161805	+	Silent	SNP	G	G	A	rs2838113	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	53	59	0	1	0	G|0.473;A|0.527	0.527	strong	.	RIPK4	151	.	NM_020639	exon8	c.C1548T	p.D516D	AGACTCGTCCCCG	.	PASS	Atlas-SNP
CBLB	868	hgsc.bcm.edu	37	3	105389153	105389153	+	Silent	SNP	A	A	G	rs11713094	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	81	117	0	0.55102	0	A|0.789;G|0.211	0.211	strong	.	CBLB	118	.	NM_170662	exon18	c.T2613C	p.P871P	TCTAGCAGGAGGC	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155219382	155219382	+	Silent	SNP	G	G	C	rs116029479	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	210	185	0	0.995261	0	G|0.959;C|0.041	0.041	strong	.	DCHS2	594	.	NM_017639	exon18	c.C4719G	p.V1573V	ATCAGTGACATAT	.	PASS	Atlas-SNP
OVCH1	341350	hgsc.bcm.edu	37	12	29617550	29617550	+	Missense_Mutation	SNP	G	G	A	rs11050243	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	110	212	2	0.497738	0.00943396	G|0.825;A|0.175	0.175	strong	OVCH1,NS,carcinoma,0,1	OVCH1	195	1	NM_183378	exon18	c.C2015T	p.S672F	AGAGGAGAGCTTA	.	scavenged	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	37	5	32074462	32074462	+	Missense_Mutation	SNP	G	G	A	rs115304584	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	47	56	0	0.552941	0	G|0.987;A|0.013	0.013	strong	.	PDZD2	306	.	NM_178140	exon17	c.G3250A	p.A1084T	AGTAGCGCACCCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	20	35	0	1	0	G|0.543;A|0.457	0.457	strong	.	SIX5	35	.	NM_175875	exon3	c.C1903T	p.P635S	AGAAGGGCAGGCT	.	PASS	Atlas-SNP
EML2	24139	hgsc.bcm.edu	37	19	46137712	46137712	+	Missense_Mutation	SNP	C	C	T	rs144104945	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	44	68	0	0.54321	0	C|0.996;T|0.004	0.004	strong	.	EML2	64	.	NM_001193268	exon7	c.G800A	p.R267Q	CAGTCTCGGCCAC	.	PASS	Atlas-SNP
GTF2IRD1	9569	hgsc.bcm.edu	37	7	73929751	73929751	+	Silent	SNP	G	G	A	rs138159923	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	27	44	0	0.473684	0	G|0.996;A|0.004	0.004	strong	.	GTF2IRD1	91	.	NM_001199207	exon4	c.G342A	p.S114S	GGCCTCGCGTGCT	.	PASS	Atlas-SNP
NHLRC2	374354	hgsc.bcm.edu	37	10	115614740	115614740	+	Silent	SNP	C	C	T	rs17235038	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	51	92	0	0.476636	0	C|0.982;T|0.018	0.018	strong	.	NHLRC2	56	.	NM_198514	exon1	c.C109T	p.L37L	GACAGCCTGGTCT	.	PASS	Atlas-SNP
LRRCC1	85444	hgsc.bcm.edu	37	8	86027418	86027418	+	Missense_Mutation	SNP	A	A	G	rs3736038	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	69	101	0	0.5	0	A|0.828;G|0.172	0.172	strong	.	LRRCC1	212	.	NM_033402	exon5	c.A628G	p.T210A	AATTTGACAGAAA	.	PASS	Atlas-SNP
BCL6B	255877	hgsc.bcm.edu	37	17	6929924	6929924	+	Silent	SNP	T	T	C	rs379478	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	146	127	1	0.986486	0.00787402	T|0.032;C|0.968	0.968	strong	.	BCL6B	85	.	NM_181844	exon6	c.T1038C	p.H346H	CAGTCATCGTACA	.	PASS	Atlas-SNP
MTMR10	54893	hgsc.bcm.edu	37	15	31267147	31267147	+	Silent	SNP	C	C	T	rs1133642	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	34	106	0	0.43038	0	A|0.000;C|0.421;T|0.579	0.579	strong	.	MTMR10	74	.	NM_017762	exon4	c.G318A	p.E106E	AATTTGCTCAATA	.	PASS	Atlas-SNP
SEC24D	9871	hgsc.bcm.edu	37	4	119736796	119736796	+	Silent	SNP	A	A	C	rs2389688	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	79	166	0	0.490683	0	T|0.108;G|0.070	.	strong	SEC24D,NS,carcinoma,0,1	SEC24D	96	1	NM_014822	exon5	c.T483G	p.P161P	AATGGAAGGCTGT	.	PASS	Atlas-SNP
SORBS1	10580	hgsc.bcm.edu	37	10	97106165	97106165	+	Silent	SNP	T	T	C	rs726176	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	30	46	0	0.517241	0	A|0.002;C|0.320	0.320	strong	.	SORBS1	185	.	NM_001034955	exon24	c.A2493G	p.L831L	TTACTTTAGTGTC	.	PASS	Atlas-SNP
PZP	5858	hgsc.bcm.edu	37	12	9317885	9317885	+	Silent	SNP	G	G	A	rs72656611	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	44	146	0	0.309859	0	G|0.167;A|0.833	0.833	weak	PZP_ENST00000381997,NS,carcinoma,0,2	PZP	422	2	NM_002864	exon19	c.C2337T	p.S779S	ATCTTCGGACAGG	.	PASS	Atlas-SNP
ESRRA	2101	hgsc.bcm.edu	37	11	64081445	64081445	+	Silent	SNP	G	G	A	rs2276014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	65	146	0	0.555556	0	G|0.895;A|0.105	0.105	strong	.	ESRRA	56	.	NM_004451	exon3	c.G348A	p.P116P	CTGTCCGGCCTCC	.	PASS	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	37	12	998365	998365	+	Missense_Mutation	SNP	G	G	T	rs12828016	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	144	138	1	1	0.00724638	G|0.585;T|0.415	0.415	strong	.	WNK1	403	.	NM_001184985	exon21	c.G6204T	p.M2068I	AGAGATGATCACA	.	PASS	Atlas-SNP
DFNB59	494513	hgsc.bcm.edu	37	2	179325735	179325735	+	Missense_Mutation	SNP	C	C	G	rs17304212	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	52	84	0	0.477064	0	C|0.932;G|0.038;T|0.030	0.038	strong	DFNB59,lymph_node,lymphoid_neoplasm,0,1	DFNB59	37	1	NM_001042702	exon7	c.C793G	p.R265G	ATTTCTCGTTCAC	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96122210	96122210	+	Missense_Mutation	SNP	C	C	T	rs10050860	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	103	102	1	0.990385	0.00980392	C|0.855;T|0.145	0.145	strong	.	ERAP1	59	.	NM_001198541	exon12	c.G1723A	p.D575N	CCATGTCGGATTT	.	PASS	Atlas-SNP
MYH15	22989	hgsc.bcm.edu	37	3	108163559	108163559	+	Silent	SNP	C	C	T	rs148022324	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	106	277	1	0.42915	0.00361011	C|0.998;T|0.002	0.002	strong	.	MYH15	223	.	NM_014981	exon23	c.G2643A	p.Q881Q	CTCCCTCTGAAAC	.	PASS	Atlas-SNP
FCHO2	115548	hgsc.bcm.edu	37	5	72351905	72351905	+	Silent	SNP	A	A	G	rs57213367	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	117	203	0	0.529412	0	A|0.828;G|0.172	0.172	strong	.	FCHO2	96	.	NM_138782	exon16	c.A1224G	p.T408T	GTTAACAAAATCA	.	PASS	Atlas-SNP
SLC2A6	11182	hgsc.bcm.edu	37	9	136339181	136339181	+	Silent	SNP	C	C	T	rs28584627	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	49	110	0	0.556818	0	C|0.965;T|0.035	0.035	strong	.	SLC2A6	31	.	NM_017585	exon7	c.G957A	p.G319G	CACGGCCCCAACG	.	PASS	Atlas-SNP
FOXQ1	94234	hgsc.bcm.edu	37	6	1313470	1313470	+	Silent	SNP	C	C	T	rs4435985	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	183	126	0	0.983871	0	C|0.811;T|0.189	0.189	strong	FOXQ1,NS,carcinoma,0,1	FOXQ1	8	1	NM_033260	exon1	c.C531T	p.F177F	CTGCTTCGTCAAG	.	PASS	Atlas-SNP
SEMA3C	10512	hgsc.bcm.edu	37	7	80374342	80374342	+	Silent	SNP	A	A	G	rs1949971	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	310	309	309	0	0.996774	0	A|0.082;G|0.918	0.918	strong	.	SEMA3C	106	.	NM_006379	exon18	c.T2124C	p.Y708Y	TTTGCAATATTGG	.	PASS	Atlas-SNP
ZNF648	127665	hgsc.bcm.edu	37	1	182026813	182026813	+	Missense_Mutation	SNP	G	G	C	rs12568050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	85	224	0	0.335968	0	G|0.864;C|0.136	0.136	strong	.	ZNF648	111	.	NM_001009992	exon2	c.C333G	p.N111K	GGTCTCGTTGATC	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	286593	286593	+	Missense_Mutation	SNP	C	C	A	rs529208	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	206	222	0	1	0	C|0.497;A|0.503	0.503	strong	.	DOCK8	401	.	NM_203447	exon3	c.C289A	p.P97T	TTCACGCCAAAGG	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33653448	33653448	+	Silent	SNP	C	C	T	rs749338	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	61	132	0	0.38125	0	C|0.600;T|0.400	0.400	strong	.	ITPR3	409	.	NM_002224	exon41	c.C5511T	p.G1837G	ACCTGGCTCCTCA	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057958	46057958	+	Silent	SNP	C	C	T	rs4818951	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	300	143	409	1	0.476667	0.00244499	C|0.368;T|0.632	0.632	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.C624T	p.S208S	CCCCTCCTGCGGT	.	PASS	Atlas-SNP
CCDC171	203238	hgsc.bcm.edu	37	9	15591372	15591372	+	Missense_Mutation	SNP	T	T	A	rs4741510	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	119	161	0	1	0	T|0.666;A|0.334	0.334	strong	C9orf93,NS,carcinoma,0,1	.	.	1	NM_173550	exon5	c.T361A	p.S121T	CAGAATTCAGAAC	.	PASS	Atlas-SNP
LAMA2	3908	hgsc.bcm.edu	37	6	129635920	129635920	+	Missense_Mutation	SNP	G	G	A	rs34505698	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	27	73	0	0.457627	0	G|0.999;A|0.001	0.001	strong	.	LAMA2	481	.	NM_000426	exon24	c.G3532A	p.A1178T	TCTGAAGCAAAAG	.	PASS	Atlas-SNP
REG1B	5968	hgsc.bcm.edu	37	2	79313990	79313990	+	Missense_Mutation	SNP	C	C	T	rs62640882	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	95	183	0	0.492228	0	C|0.975;T|0.025	0.025	strong	.	REG1B	83	.	NM_006507	exon3	c.G131A	p.R44H	TAGGAGCGATAGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9071834	9071834	+	Silent	SNP	G	G	C	rs17000803	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	53	130	0	0.427419	0	G|0.792;C|0.208	0.208	strong	MUC16_ENST00000397910,NS,carcinoma,-1,3	MUC16	4315	3	NM_024690	exon3	c.C15612G	p.P5204P	GTCCGTGGGAAAG	.	PASS	Atlas-SNP
CLSTN2	64084	hgsc.bcm.edu	37	3	140281723	140281723	+	Silent	SNP	C	C	T	rs11714465	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	62	143	0	0.484375	0	C|0.555;T|0.445	0.445	strong	.	CLSTN2	190	.	NM_022131	exon14	c.C2283T	p.S761S	GGCTTCCCTTGAG	.	PASS	Atlas-SNP
CTNND1	1500	hgsc.bcm.edu	37	11	57564451	57564451	+	Missense_Mutation	SNP	C	C	T	rs199813020	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	42	89	0	0.4375	0	.	.	weak	.	CTNND1	203	.	NM_001085461	exon6	c.C943T	p.R315C	GACCCTCGTCGGC	.	PASS	Atlas-SNP
KRT2	3849	hgsc.bcm.edu	37	12	53045642	53045642	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	17	150	0	0.119718	0	.	.	none	KRT2,rectum,carcinoma,0,1	KRT2	94	1	NM_000423	exon1	c.T285C	p.G95G	TCCAAAACCACCT	.	PASS	Atlas-SNP
RBM33	155435	hgsc.bcm.edu	37	7	155503920	155503920	+	Silent	SNP	A	A	T	rs7800753	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	58	129	0	0.920635	0	A|0.344;T|0.656	0.656	strong	.	RBM33	157	.	NM_053043	exon8	c.A972T	p.P324P	ACCGCCACCGCCG	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97849219	97849219	+	Missense_Mutation	SNP	T	T	C	rs12996352	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	32	12	0	1	0	T|0.485;C|0.515	0.515	strong	ANKRD36_ENST00000420699,NS,carcinoma,0,1	ANKRD36	170	1	NM_001164315	exon27	c.T1861C	p.W621R	TCGGCCTGGAAGG	.	PASS	Atlas-SNP
B4GALNT4	338707	hgsc.bcm.edu	37	11	380315	380315	+	Silent	SNP	C	C	T	rs117291242	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	52	110	0	0.547368	0	C|0.978;T|0.022	0.022	strong	B4GALNT4,NS,carcinoma,+2,1	B4GALNT4	83	1	NM_178537	exon18	c.C2739T	p.L913L	GTTCCTCTGCGAC	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	37	9	141008876	141008876	+	Silent	SNP	C	C	T	rs2229948	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	32	77	0	0.444444	0	C|0.503;T|0.497	0.497	strong	.	CACNA1B	266	.	NM_001243812	exon40	c.C5583T	p.F1861F	GATATTCGACTTC	.	PASS	Atlas-SNP
SIGLEC5	8778	hgsc.bcm.edu	37	19	52130830	52130830	+	Silent	SNP	C	C	A	rs8107754	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	54	91	0	0.545455	0	C|0.575;A|0.425	0.425	strong	SIGLEC5,NS,carcinoma,-1,1	SIGLEC5	67	1	NM_003830	exon6	c.G1167T	p.G389G	CCAGGGCCCAGCT	.	PASS	Atlas-SNP
CCDC67	159989	hgsc.bcm.edu	37	11	93129484	93129484	+	Missense_Mutation	SNP	A	A	G	rs12282288	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	68	120	0	0.523077	0	A|0.801;G|0.199	0.199	strong	.	CCDC67	57	.	NM_181645	exon11	c.A1319G	p.E440G	CCGGAGAATACAT	.	PASS	Atlas-SNP
FASTKD1	79675	hgsc.bcm.edu	37	2	170417031	170417031	+	Silent	SNP	T	T	C	rs35933910	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	70	127	0	0.56	0	T|0.967;C|0.033	0.033	strong	.	FASTKD1	86	.	NM_024622	exon5	c.A837G	p.Q279Q	ATTAAATTGTAGA	.	PASS	Atlas-SNP
PPIL2	23759	hgsc.bcm.edu	37	22	22039199	22039199	+	Silent	SNP	C	C	T	rs861833	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	34	90	0	0.453333	0	C|0.901;T|0.099	0.099	strong	PPIL2,colon,carcinoma,0,1	PPIL2	38	1	NM_014337	exon10	c.C711T	p.N237N	GCTGAACGCTGTG	.	PASS	Atlas-SNP
FAM107A	11170	hgsc.bcm.edu	37	3	58552950	58552950	+	Silent	SNP	C	C	T	rs1139701	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	106	175	0	0.50237	0	C|0.964;T|0.036	0.036	strong	.	FAM107A	33	.	NM_001076778	exon3	c.G312A	p.Q104Q	CCTCTGCTGCCGT	.	PASS	Atlas-SNP
KCNH2	3757	hgsc.bcm.edu	37	7	150645534	150645534	+	Missense_Mutation	SNP	T	T	G	rs1805123	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	15	35	0	0.652174	0	T|0.855;G|0.145	0.145	strong	KCNH2,colon,carcinoma,0,1	KCNH2	157	1	NM_000238	exon11	c.A2690C	p.K897T	TCACCCTTGTCCG	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238244923	238244923	+	Silent	SNP	C	C	T	rs11683438	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	44	55	0	0.53012	0	C|0.933;G|0.000;T|0.067	0.067	strong	.	COL6A3	608	.	NM_004369	exon40	c.G8820A	p.T2940T	CGCTGCCGTTGCT	.	PASS	Atlas-SNP
ZNF763	284390	hgsc.bcm.edu	37	19	12087921	12087921	+	Silent	SNP	G	G	C	rs376310072	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	12	216	0	0.046875	0	.	.	alt	ZNF763,NS,carcinoma,+1,2	ZNF763	31	2	NM_001012753	exon2	c.G81C	p.S27S	TATTTCGCAGAGG	.	scavenged	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	37	17	1629969	1629969	+	Silent	SNP	C	C	T	rs80035274	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	20	41	0	0.540541	0	C|0.833;T|0.167	0.167	strong	WDR81_ENST00000409644,NS,carcinoma,0,1	WDR81	180	1	NM_001163809	exon1	c.C1716T	p.H572H	CGCCCACACTCAC	.	PASS	Atlas-SNP
GAS2L2	246176	hgsc.bcm.edu	37	17	34072031	34072031	+	Missense_Mutation	SNP	G	G	A	rs56386706	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	51	96	0	0.490385	0	G|0.964;A|0.036	0.036	strong	.	GAS2L2	94	.	NM_139285	exon6	c.C2485T	p.R829W	CCACCCGGGATGC	.	PASS	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34926043	34926043	+	Missense_Mutation	SNP	G	G	A	rs61743204	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	26	45	0	0.553191	0	G|0.884;A|0.116	0.116	strong	.	SON	343	.	NM_032195	exon3	c.G4506A	p.M1502I	TGGCATGCAGGAG	.	PASS	Atlas-SNP
TRIM64B	642446	hgsc.bcm.edu	37	11	89608899	89608899	+	Missense_Mutation	SNP	T	T	G	rs77843834	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	55	180	1	0.407407	0.00555556	T|0.500;G|0.500	0.500	strong	TRIM64B,NS,carcinoma,0,2	TRIM64B	23	2	NM_001164397	exon1	c.A287C	p.E96A	GTCTCCTCATGGA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505960	195505960	+	Missense_Mutation	SNP	G	G	C	rs376166		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	29	159	0	0.268519	0	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C12491G	p.T4164S	GCGTCGGTGACAG	.	PASS	Atlas-SNP
EIF2AK4	440275	hgsc.bcm.edu	37	15	40313141	40313141	+	Silent	SNP	C	C	T	rs3207297	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	77	164	0	0.427778	0	C|0.683;T|0.317	0.317	strong	.	EIF2AK4	107	.	NM_001013703	exon31	c.C4215T	p.G1405G	TGTTGGCCAGATG	.	PASS	Atlas-SNP
DCAF13	25879	hgsc.bcm.edu	37	8	104427578	104427578	+	Silent	SNP	T	T	C	rs3134297	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	41	65	1	0.431579	0.0153846	T|0.764;C|0.236	0.236	strong	DCAF13,NS,carcinoma,0,1	DCAF13	66	1	NM_015420	exon1	c.T360C	p.S120S	TGGAAGTAGTCTG	.	scavenged	Atlas-SNP
NPW	283869	hgsc.bcm.edu	37	16	2070568	2070568	+	Missense_Mutation	SNP	A	A	C	rs2286472	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	21	40	0	0.477273	0	A|0.624;C|0.376	0.376	strong	NPW,NS,carcinoma,0,2	NPW	4	2	NM_001099456	exon2	c.A446C	p.D149A	CGGTGGACCCCGC	.	PASS	Atlas-SNP
JMJD4	65094	hgsc.bcm.edu	37	1	227920357	227920357	+	Silent	SNP	C	C	T	rs4837	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	19	66	0	0.452381	0	C|0.892;T|0.108	0.108	strong	.	JMJD4	28	.	NM_023007	exon6	c.G1128A	p.S376S	GATGCCCGAGCAG	.	PASS	Atlas-SNP
AKAP12	9590	hgsc.bcm.edu	37	6	151672185	151672185	+	Missense_Mutation	SNP	A	A	T	rs61748676	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	44	86	0	0.54321	0	A|0.978;T|0.022	0.022	strong	.	AKAP12	170	.	NM_005100	exon4	c.A2659T	p.S887C	AGCGAGAGTCAGG	.	PASS	Atlas-SNP
ZNF483	158399	hgsc.bcm.edu	37	9	114305075	114305075	+	Silent	SNP	G	G	A	rs142830150		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	5	103	1	0.0595238	0.00970874	G|1.000;A|0.000	0.000	weak	ZNF483,NS,carcinoma,+1,1	ZNF483	78	1	NM_133464	exon6	c.G1860A	p.T620T	TTTTACGTCTGTG	.	scavenged	Atlas-SNP
SLCO1B3	28234	hgsc.bcm.edu	37	12	21011480	21011480	+	Missense_Mutation	SNP	T	T	G	rs4149117	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	162	152	0	1	0	G|0.702;N|0.000	0.702	strong	.	SLCO1B3	151	.	NM_019844	exon5	c.T334G	p.S112A	TTGACATCTTTAC	.	PASS	Atlas-SNP
FAM153A	285596	hgsc.bcm.edu	37	5	177163580	177163580	+	Missense_Mutation	SNP	A	A	G	rs2014864	bycluster;byfrequency;bysubmitter;by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	510	119	586	1	0.233333	0.00170648	A|0.500;G|0.500	0.500	strong	FAM153A,NS,carcinoma,0,2	FAM153A	23	2	NM_173663	exon11	c.T433C	p.F145L	ACGTACATTCGGC	.	scavenged	Atlas-SNP
LPAR3	23566	hgsc.bcm.edu	37	1	85331462	85331462	+	Silent	SNP	A	A	C	rs41289037	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	104	206	0	0.611765	0	A|0.991;C|0.009	0.009	strong	.	LPAR3	53	.	NM_012152	exon2	c.T342G	p.T114T	GGAAGCAGTCAAG	.	PASS	Atlas-SNP
PIK3C2B	5287	hgsc.bcm.edu	37	1	204396830	204396830	+	Silent	SNP	G	G	A	rs17334387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	63	126	0	0.375	0	G|0.857;A|0.143	0.143	strong	.	PIK3C2B	142	.	NM_002646	exon32	c.C4533T	p.S1511S	GGAGATGGACAGC	.	PASS	Atlas-SNP
NOL11	25926	hgsc.bcm.edu	37	17	65739627	65739627	+	Silent	SNP	A	A	G	rs10127	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	280	120	238	0	0.428571	0	A|0.511;G|0.489	0.489	strong	.	NOL11	48	.	NM_015462	exon17	c.A1968G	p.A656A	GGATGCAAATTTT	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103402522	103402522	+	Silent	SNP	C	C	T	rs9300760	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	74	189	0	0.379487	0	C|0.316;N|0.001	.	strong	.	.	.	.	NM_001146197	exon4	c.G525A	p.T175T	TAGACACGTTTCC	.	PASS	Atlas-SNP
PRUNE2	158471	hgsc.bcm.edu	37	9	79324179	79324179	+	Missense_Mutation	SNP	G	G	A	rs530978	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	263	129	272	1	0.490494	0.00367647	G|0.567;A|0.433	0.433	strong	.	PRUNE2	331	.	NM_015225	exon8	c.C3011T	p.T1004M	TCTGCCGTGGAGT	.	PASS	Atlas-SNP
ATM	472	hgsc.bcm.edu	37	11	108175462	108175462	+	Missense_Mutation	SNP	G	G	A	rs1801516	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	54	120	0	0.486486	0	G|0.910;A|0.090	0.090	strong	ATM_ENST00000278616,colon,carcinoma,-1,17	ATM	1657	17	NM_000051	exon37	c.G5557A	p.D1853N	CTCCAAGATACAA	.	PASS	Atlas-SNP
SLC7A11	23657	hgsc.bcm.edu	37	4	139140494	139140494	+	Silent	SNP	G	G	C	rs6838248	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	83	147	0	0.448649	0	G|0.601;C|0.399	0.399	strong	.	SLC7A11	40	.	NM_014331	exon5	c.C672G	p.A224A	TGAAAAGGCGTCT	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1266599	1266599	+	Missense_Mutation	SNP	C	C	T	rs139960671	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	383	196	501	0	0.511749	0	C|0.895;T|0.105	0.105	strong	.	MUC5B	473	.	NM_002458	exon31	c.C8489T	p.P2830L	CCACCCCGGGCCA	.	PASS	Atlas-SNP
HAP1	9001	hgsc.bcm.edu	37	17	39883350	39883350	+	Missense_Mutation	SNP	G	G	A	rs4523977	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	25	47	0	0.471698	0	G|0.825;A|0.175	0.175	strong	.	HAP1	48	.	NM_177977	exon9	c.C1322T	p.T441M	AGAGACGTTCTGA	.	PASS	Atlas-SNP
DYRK2	8445	hgsc.bcm.edu	37	12	68052178	68052178	+	Silent	SNP	G	G	T	rs3741644	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	180	146	0	0.983607	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
OR2T27	403239	hgsc.bcm.edu	37	1	248814052	248814052	+	Missense_Mutation	SNP	T	T	A	rs61834486	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	357	278	321	1	0.778711	0.00311526	T|0.250;A|0.750	0.750	weak	.	OR2T27	52	.	NM_001001824	exon1	c.A134T	p.K45M	ATGATCTTGACCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515008	195515008	+	Missense_Mutation	SNP	C	C	G	rs201451131	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	25	418	0	0.260417	0	C|0.952;G|0.048	0.048	strong	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G3443C	p.G1148A	GTGTGACCTGTGG	.	PASS	Atlas-SNP
OR2M2	391194	hgsc.bcm.edu	37	1	248343990	248343990	+	Missense_Mutation	SNP	T	T	C	rs4916104	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268	265	434	0	0.988806	0	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
SUCO	51430	hgsc.bcm.edu	37	1	172558524	172558524	+	Silent	SNP	A	A	G	rs41264546	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	54	80	0	0.5625	0	A|0.935;G|0.065	0.065	strong	.	.	.	.	NM_014283	exon18	c.A2283G	p.P761P	TATACCATCACCA	.	PASS	Atlas-SNP
MAP3K6	9064	hgsc.bcm.edu	37	1	27687466	27687466	+	Missense_Mutation	SNP	G	G	T	rs35659744	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	22	62	0	0.354839	0	G|0.846;T|0.154	0.154	strong	MAP3K6_ENST00000493901,brain,glioma,0,16	MAP3K6	134	16	NM_004672	exon14	c.C1866A	p.N622K	ATCCGGGTTCGTC	.	PASS	Atlas-SNP
PLEKHS1	79949	hgsc.bcm.edu	37	10	115540411	115540411	+	Silent	SNP	T	T	C	rs11196483	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	37	61	0	0.560606	0	T|0.631;C|0.369	0.369	strong	.	PLEKHS1	19	.	NM_001193435	exon11	c.T972C	p.A324A	CCATGCTGCATCC	.	PASS	Atlas-SNP
ABCA5	23461	hgsc.bcm.edu	37	17	67260926	67260926	+	Silent	SNP	A	A	G	rs12449649	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	148	150	0	0.993289	0	A|0.614;G|0.386	0.386	strong	.	ABCA5	162	.	NM_018672	exon23	c.T3265C	p.L1089L	ATGCCAATAAGCT	.	PASS	Atlas-SNP
GSDMC	56169	hgsc.bcm.edu	37	8	130774897	130774897	+	Silent	SNP	T	T	C	rs17190932	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	48	123	0	0.40678	0	C|0.125;N|0.000	0.125	strong	GSDMC,NS,carcinoma,0,1	GSDMC	71	1	NM_031415	exon5	c.A651G	p.R217R	CTGCTTTCTCTTA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	44	80	0	0.468085	0	T|0.523;C|0.477	0.477	strong	.	NUDT5	10	.	NM_014142	exon10	c.A609G	p.A203A	TTTCAGTGCTAGA	.	PASS	Atlas-SNP
CAMTA1	23261	hgsc.bcm.edu	37	1	7797503	7797503	+	Missense_Mutation	SNP	C	C	G	rs41278952	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	91	126	0	0.598684	0	C|0.901;G|0.099	0.099	strong	.	CAMTA1	226	.	NM_015215	exon15	c.C3531G	p.N1177K	ACAGAACCCCAGA	.	PASS	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	37	1	86900372	86900372	+	Missense_Mutation	SNP	C	C	G	rs17409304	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	43	154	0	0.358333	0	C|0.739;G|0.261	0.261	strong	.	CLCA2	102	.	NM_006536	exon6	c.C916G	p.Q306E	CTTGTACAGGCTG	.	PASS	Atlas-SNP
HFM1	164045	hgsc.bcm.edu	37	1	91784887	91784887	+	Silent	SNP	G	G	A	rs10493845	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	65	197	0	0.382353	0	G|0.749;A|0.251	0.251	strong	HFM1,NS,carcinoma,0,1	HFM1	188	1	NM_001017975	exon24	c.C2643T	p.T881T	CTTTGCGGTATCT	.	PASS	Atlas-SNP
KRT39	390792	hgsc.bcm.edu	37	17	39123013	39123013	+	Silent	SNP	G	G	A	rs17645930	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	301	300	235	1	0.996678	0.00425532	G|0.868;A|0.132	0.132	strong	.	KRT39	53	.	NM_213656	exon1	c.C96T	p.N32N	GCAGCCGTTGTTA	.	PASS	Atlas-SNP
HS3ST5	222537	hgsc.bcm.edu	37	6	114378970	114378970	+	Silent	SNP	C	C	T	rs2282237	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	130	241	0	0.62201	0	C|0.733;T|0.267	0.267	strong	HS3ST5,NS,carcinoma,0,1	HS3ST5	80	1	NM_153612	exon2	c.G492A	p.E164E	TGGAACCTCCTCT	.	PASS	Atlas-SNP
HSPBAP1	79663	hgsc.bcm.edu	37	3	122459477	122459477	+	Silent	SNP	A	A	G	rs61732313	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	178	163	0	0.988889	0	A|0.914;G|0.086	0.086	strong	.	HSPBAP1	32	.	NM_024610	exon8	c.T1182C	p.P394P	TGCTACAGGGACC	.	PASS	Atlas-SNP
HOXB1	3211	hgsc.bcm.edu	37	17	46607958	46607958	+	Missense_Mutation	SNP	T	T	A	rs12939811	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	22	43	0	0.488889	0	T|0.866;A|0.134	0.134	strong	.	HOXB1	67	.	NM_002144	exon1	c.A309T	p.Q103H	TTCTGATTGACCC	.	PASS	Atlas-SNP
GIPC2	54810	hgsc.bcm.edu	37	1	78585086	78585086	+	Missense_Mutation	SNP	T	T	C	rs540742	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	22	64	0	0.407407	0	A|0.004;C|0.271	0.271	strong	.	GIPC2	37	.	NM_017655	exon4	c.T617C	p.L206P	TAGAGCTGAGGTC	.	PASS	Atlas-SNP
MED13L	23389	hgsc.bcm.edu	37	12	116403920	116403920	+	Silent	SNP	G	G	A	rs3088260	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	72	148	0	0.483221	0	G|0.936;A|0.064	0.064	strong	.	MED13L	193	.	NM_015335	exon29	c.C6354T	p.P2118P	AGCCTGGGGACAC	.	PASS	Atlas-SNP
PRAMEF1	65121	hgsc.bcm.edu	37	1	12854479	12854479	+	Missense_Mutation	SNP	C	C	G	rs1063775	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	439	65	494	11	0.148064	0.0222672	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
CDH3	1001	hgsc.bcm.edu	37	16	68721533	68721533	+	Missense_Mutation	SNP	G	G	C	rs1126933	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	87	171	0	0.527273	0	G|0.672;C|0.328	0.328	strong	.	CDH3	68	.	NM_001793	exon12	c.G1689C	p.Q563H	GCGCCAGGTGCTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	67	168	0	0.471831	0	A|0.697;G|0.303	0.303	strong	.	TIE1	132	.	NM_005424	exon18	c.A2973G	p.L991L	GAACCTAGCCTCC	.	PASS	Atlas-SNP
GPATCH2	55105	hgsc.bcm.edu	37	1	217793484	217793484	+	Silent	SNP	C	C	T	rs140815718	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	37	94	0	0.486842	0	C|0.994;T|0.006	0.006	strong	.	GPATCH2	53	.	NM_018040	exon2	c.G414A	p.G138G	TCTTTTCCCTCGA	.	PASS	Atlas-SNP
KRTAP9-2	83899	hgsc.bcm.edu	37	17	39383027	39383027	+	Missense_Mutation	SNP	G	G	T	rs71371478	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	17	90	0	0.139344	0	G|0.997;T|0.003	0.003	strong	KRTAP9-2,extremity,malignant_melanoma,0,1	KRTAP9-2	24	1	NM_031961	exon1	c.G121T	p.A41S	CAGCCCGCCTGCT	.	scavenged	Atlas-SNP
MAP2K2	5605	hgsc.bcm.edu	37	19	4102449	4102449	+	Silent	SNP	G	G	A	rs17851657	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	26	39	0	0.565217	0	G|0.865;A|0.135	0.135	strong	MAP2K2_ENST00000262948,NS,carcinoma,0,1	MAP2K2	72	1	NM_030662	exon4	c.C453T	p.D151D	GCCGCCGTCCTAG	.	PASS	Atlas-SNP
SUOX	6821	hgsc.bcm.edu	37	12	56398454	56398454	+	Silent	SNP	G	G	C	rs773115	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	102	181	0	0.548387	0	G|0.246;C|0.754	0.754	strong	.	SUOX	33	.	NM_000456	exon6	c.G1281C	p.S427S	CCAGTCGGCCATC	.	PASS	Atlas-SNP
MYH7	4625	hgsc.bcm.edu	37	14	23884889	23884889	+	Silent	SNP	C	C	T	rs3729830	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	54	126	0	0.465517	0	C|0.850;T|0.150	0.150	strong	.	MYH7	349	.	NM_000257	exon35	c.G5106A	p.A1702A	CTGCTCCGCCAGC	.	PASS	Atlas-SNP
MEGF11	84465	hgsc.bcm.edu	37	15	66214785	66214785	+	Silent	SNP	G	G	A	rs11637551	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	57	129	0	0.44186	0	G|0.950;A|0.050	0.050	strong	.	MEGF11	70	.	NM_032445	exon15	c.C1848T	p.H616H	GCAGCCGTGGCCA	.	PASS	Atlas-SNP
AOC3	8639	hgsc.bcm.edu	37	17	41004637	41004637	+	Missense_Mutation	SNP	G	G	A	rs33986943	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	335	149	304	0	0.444776	0	G|0.930;A|0.070	0.070	strong	.	AOC3	88	.	NM_003734	exon1	c.G1277A	p.R426H	CAATACGTGATGC	.	PASS	Atlas-SNP
OR51A7	119687	hgsc.bcm.edu	37	11	4928841	4928841	+	Missense_Mutation	SNP	T	T	C	rs7108225	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	93	216	2	0.550296	0.00925926	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	.	scavenged	Atlas-SNP
SENP6	26054	hgsc.bcm.edu	37	6	76425288	76425288	+	Missense_Mutation	SNP	A	A	G	rs9250	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	28	60	0	0.378378	0	A|0.806;G|0.194	0.194	strong	.	SENP6	189	.	NM_015571	exon24	c.A3317G	p.Y1106C	AACAATATGTCAA	.	PASS	Atlas-SNP
NCOA7	135112	hgsc.bcm.edu	37	6	126210797	126210797	+	Missense_Mutation	SNP	G	G	A	rs35223550	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	32	62	0	0.571429	0	G|0.996;A|0.004	0.004	strong	.	NCOA7	92	.	NM_001199619	exon10	c.G1597A	p.G533R	AAAGAAGGGCCAC	.	PASS	Atlas-SNP
TTC37	9652	hgsc.bcm.edu	37	5	94834122	94834122	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	146	250	0	0.565891	0	.	.	none	.	TTC37	128	.	NM_014639	exon33	c.A3515G	p.Q1172R	CGGCCTTGGAGTG	.	PASS	Atlas-SNP
PIWIL4	143689	hgsc.bcm.edu	37	11	94326765	94326765	+	Missense_Mutation	SNP	G	G	C	rs57607909	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	57	96	0	0.445312	0	G|0.768;C|0.232	0.232	strong	.	PIWIL4	70	.	NM_152431	exon9	c.G1108C	p.A370P	AGTGAGGCTCAGC	.	PASS	Atlas-SNP
SLC22A20	440044	hgsc.bcm.edu	37	11	64981837	64981837	+	Missense_Mutation	SNP	C	C	T	rs12420456	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	32	67	0	0.372093	0	C|0.705;T|0.295	0.295	strong	SLC22A20,NS,carcinoma,0,2	SLC22A20	36	2	NM_001004326	exon2	c.C422T	p.A141V	ACCTGGCGCAGTC	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45214661	45214661	+	Silent	SNP	G	G	A	rs111322439		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	5	19	1	0.125	0.0526316	G|0.500;A|0.500	0.500	weak	CDC27_ENST00000531206,rectum,carcinoma,0,4	CDC27	337	4	NM_001114091	exon14	c.C1788T	p.F596F	TCTCTGGAAGAAT	.	scavenged	Atlas-SNP
PCDH19	57526	hgsc.bcm.edu	37	X	99661969	99661969	+	Silent	SNP	G	G	A	rs1953337	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	72	103	0	0.96	0	G|0.881;A|0.119	0.119	strong	.	PCDH19	269	.	NM_001184880	exon1	c.C1627T	p.L543L	TTTGCAGTGAGGG	.	PASS	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	37	11	121000774	121000774	+	Missense_Mutation	SNP	T	T	C	rs520805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	29	70	0	0.483333	0	T|0.791;C|0.209	0.209	strong	.	TECTA	329	.	NM_005422	exon9	c.T2795C	p.V932A	TGAACGTCACTGC	.	PASS	Atlas-SNP
BRMS1	25855	hgsc.bcm.edu	37	11	66109033	66109033	+	Silent	SNP	T	T	C	rs11537993	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	61	116	0	0.516949	0	T|0.796;C|0.204	0.204	strong	.	BRMS1	42	.	NM_015399	exon3	c.A201G	p.L67L	CTTCTCTAGGTCC	.	PASS	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	37	7	157959879	157959879	+	Silent	SNP	C	C	T	rs1130497	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	40	72	0	0.519481	0	C|0.659;T|0.341	0.341	strong	.	PTPRN2	243	.	NM_130843	exon6	c.G654A	p.P218P	GGTCCGCGGCAGG	.	PASS	Atlas-SNP
NEK10	152110	hgsc.bcm.edu	37	3	27326451	27326451	+	Silent	SNP	A	A	G	rs10510594	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	26	54	0	0.490566	0	A|0.792;G|0.208	0.208	strong	NEK10_ENST00000429845,NS,carcinoma,0,3	NEK10	271	3	NM_199347	exon22	c.T1791C	p.N597N	CCTATCATCTATA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	76	149	0	0.391753	0	G|0.819;A|0.181	0.181	strong	.	IGFN1	220	.	NM_001164586	exon6	c.G405A	p.P135P	GGAACCGCAGGAA	.	PASS	Atlas-SNP
SCD5	79966	hgsc.bcm.edu	37	4	83582211	83582211	+	Missense_Mutation	SNP	C	C	G	rs3733227	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	61	88	0	1	0	C|0.388;G|0.612	0.612	strong	.	SCD5	58	.	NM_024906	exon4	c.G589C	p.E197Q	TTCCTTCTTTCTG	.	PASS	Atlas-SNP
WFDC9	259240	hgsc.bcm.edu	37	20	44238741	44238741	+	Missense_Mutation	SNP	T	T	G	rs2245898	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	44	82	0	0.505747	0	T|0.626;G|0.374	0.374	strong	WFDC9,NS,carcinoma,0,1	WFDC9	10	1	NM_147198	exon3	c.A80C	p.N27T	TCTTTGTTCCAGA	.	PASS	Atlas-SNP
CYP2C19	1557	hgsc.bcm.edu	37	10	96541616	96541616	+	Silent	SNP	G	G	A	rs4244285	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	57	116	0	0.548077	0	A|0.170;G|0.830	0.170	strong	.	CYP2C19	88	.	NM_000769	exon5	c.G681A	p.P227P	TTTCCCGGGAACC	.	PASS	Atlas-SNP
MLH1	4292	hgsc.bcm.edu	37	3	37053568	37053568	+	Missense_Mutation	SNP	A	A	G	rs1799977	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	55	99	0	0.591398	0	A|0.799;G|0.201	0.201	strong	MLH1,NS,carcinoma,0,1	MLH1	226	1	NM_000249	exon8	c.A655G	p.I219V	CGCTCCATCTTTG	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63922752	63922752	+	Silent	SNP	T	T	A	rs10851731	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	141	126	0	1	0	T|0.342;A|0.658	0.658	strong	HERC1_ENST00000443617,NS,carcinoma,0,1	HERC1	624	1	NM_003922	exon69	c.A12879T	p.I4293I	ATCTTCTATGATT	.	PASS	Atlas-SNP
BCAT2	587	hgsc.bcm.edu	37	19	49303070	49303070	+	Missense_Mutation	SNP	G	G	C	rs11548193	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	28	65	0	0.538462	0	G|0.904;C|0.096	0.096	strong	.	BCAT2	35	.	NM_001190	exon6	c.C557G	p.T186R	GCGCGCGTGGGCT	.	PASS	Atlas-SNP
C10orf128	170371	hgsc.bcm.edu	37	10	50374930	50374930	+	Silent	SNP	C	C	T	rs45563932	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	25	51	0	0.423729	0	C|0.865;T|0.135	0.135	strong	.	C10orf128	20	.	NM_001010863	exon3	c.G222A	p.T74T	CCCAGGCGTGCTT	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38946182	38946182	+	Silent	SNP	G	G	A	rs2288888	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	70	127	0	0.510949	0	G|0.376;A|0.624	0.624	strong	.	RYR1	708	.	NM_001042723	exon15	c.G1668A	p.S556S	GGCCTCGTCTGGT	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40363916	40363916	+	Missense_Mutation	SNP	C	C	T	rs77005739	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	55	134	0	0.416667	0	C|0.949;T|0.051	0.051	strong	FCGBP,NS,carcinoma,0,1	FCGBP	416	1	NM_003890	exon31	c.G14726A	p.R4909H	AGGAGGCGTTGGA	.	PASS	Atlas-SNP
KPRP	448834	hgsc.bcm.edu	37	1	152733301	152733301	+	Missense_Mutation	SNP	T	T	A	rs4329520	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	262	262	211	0	1	0	T|0.489;A|0.511	0.511	strong	.	KPRP	152	.	NM_001025231	exon2	c.T1237A	p.C413S	GAACCATGCATAA	.	PASS	Atlas-SNP
CHFR	55743	hgsc.bcm.edu	37	12	133423695	133423695	+	Silent	SNP	A	A	G	rs2306537	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	24	63	0	0.510638	0	A|0.803;G|0.197	0.197	strong	.	CHFR	83	.	NM_001161344	exon15	c.T1705C	p.L569L	ATGTCAAACCTCT	.	PASS	Atlas-SNP
CD300LB	124599	hgsc.bcm.edu	37	17	72521967	72521967	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	35	215	0	0.166667	0	.	.	none	.	CD300LB	38	.	NM_174892	exon2	c.A401G	p.D134G	GCGTCATCTCGCC	.	PASS	Atlas-SNP
SLC25A23	79085	hgsc.bcm.edu	37	19	6444196	6444196	+	Silent	SNP	C	C	G	rs138598051	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	30	77	0	0.37037	0	C|0.989;G|0.011	0.011	strong	.	SLC25A23	43	.	NM_024103	exon9	c.G1188C	p.P396P	GGCCAGCGGGTAA	.	PASS	Atlas-SNP
ZCCHC16	340595	hgsc.bcm.edu	37	X	111698440	111698440	+	Missense_Mutation	SNP	G	G	T	rs7474140	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	114	195	0	0.974359	0	G|0.866;T|0.134	0.134	strong	.	ZCCHC16	66	.	NM_001004308	exon3	c.G484T	p.D162Y	CAGCAGGACCCTG	.	PASS	Atlas-SNP
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45970812	45970812	+	Missense_Mutation	SNP	G	G	A	rs2329834	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	133	282	0	0.570815	0	G|0.491;A|0.509	0.509	strong	.	KRTAP10-2	21	.	NM_198693	exon1	c.C530T	p.P177L	TGACACGGGGAGG	.	PASS	Atlas-SNP
CAMK1G	57172	hgsc.bcm.edu	37	1	209782343	209782343	+	Silent	SNP	A	A	G	rs11119314	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	120	125	0	0.991736	0	A|0.485;G|0.515	0.515	strong	CAMK1G,NS,adenoma,0,2	CAMK1G	49	2	NM_020439	exon8	c.A654G	p.P218P	CCCCCCATTCTAT	.	PASS	Atlas-SNP
SLC22A2	6582	hgsc.bcm.edu	37	6	160679400	160679400	+	Silent	SNP	C	C	A	rs624249	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	67	63	0	1	0	C|0.673;A|0.327	0.327	strong	.	SLC22A2	78	.	NM_003058	exon1	c.G390T	p.T130T	GCCAGGCGTCTCG	.	PASS	Atlas-SNP
GOLGA3	2802	hgsc.bcm.edu	37	12	133384864	133384864	+	Missense_Mutation	SNP	G	G	A	rs3741486	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	105	208	1	0.481651	0.00480769	G|0.802;A|0.198	0.198	strong	.	GOLGA3	234	.	NM_001172557	exon5	c.C791T	p.P264L	GGAGCCGGGACAT	.	PASS	Atlas-SNP
KIAA1671	85379	hgsc.bcm.edu	37	22	25577733	25577733	+	Silent	SNP	T	T	C	rs9612887	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	114	113	0	1	0	T|0.458;C|0.542	0.542	strong	KIAA1671,NS,carcinoma,0,1	KIAA1671	28	1	NM_001145206	exon8	c.T5142C	p.P1714P	GACCCCTGTCAGC	.	PASS	Atlas-SNP
AK5	26289	hgsc.bcm.edu	37	1	77759578	77759578	+	Silent	SNP	A	A	G	rs2815311	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	109	167	0	0.579787	0	A|0.843;G|0.157	0.157	strong	.	AK5	86	.	NM_174858	exon3	c.A348G	p.A116A	GACTGCAGAGTTG	.	PASS	Atlas-SNP
MGA	23269	hgsc.bcm.edu	37	15	41989091	41989091	+	Missense_Mutation	SNP	C	C	A	rs61736074	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	75	100	0	0.559702	0	C|0.987;A|0.013	0.013	strong	.	MGA	264	.	NM_001080541	exon3	c.C1883A	p.P628Q	GACGACCACCTAA	.	PASS	Atlas-SNP
EEA1	8411	hgsc.bcm.edu	37	12	93181768	93181768	+	Missense_Mutation	SNP	C	C	A	rs61756482	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235	101	191	0	0.429787	0	C|0.976;A|0.024	0.024	strong	.	EEA1	104	.	NM_003566	exon22	c.G3025T	p.A1009S	TCTCTGCTGCAAG	.	PASS	Atlas-SNP
MUS81	80198	hgsc.bcm.edu	37	11	65628334	65628334	+	Missense_Mutation	SNP	G	G	A	rs13817	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	53	55	0	0.981481	0	G|0.576;A|0.424	0.424	strong	.	MUS81	68	.	NM_025128	exon1	c.G110A	p.R37H	GCAGGCGCCGCAC	.	PASS	Atlas-SNP
WFDC10B	280664	hgsc.bcm.edu	37	20	44314609	44314609	+	Missense_Mutation	SNP	A	A	G	rs232729	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	323	150	312	1	0.464396	0.00320513	A|0.257;G|0.743	0.743	strong	.	WFDC10B	15	.	NM_172006	exon3	c.T23C	p.L8P	AGGACAAGCAGCA	.	PASS	Atlas-SNP
EBP	10682	hgsc.bcm.edu	37	X	48382174	48382174	+	Silent	SNP	G	G	T	rs3048	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	64	106	0	1	0	G|0.693;T|0.307	0.307	strong	.	EBP	30	.	NM_006579	exon2	c.G15T	p.A5A	CAACGCGGGCCCC	.	PASS	Atlas-SNP
IPO13	9670	hgsc.bcm.edu	37	1	44415415	44415415	+	Silent	SNP	C	C	T	rs2240447	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	112	136	0	1	0	C|0.416;T|0.584	0.584	strong	.	IPO13	86	.	NM_014652	exon2	c.C411T	p.D137D	GCCTGACGCTTGG	.	PASS	Atlas-SNP
ADAM20	8748	hgsc.bcm.edu	37	14	70989762	70989762	+	Silent	SNP	T	T	C	rs9323540	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	82	184	0	0.383178	0	T|0.943;C|0.057	0.057	strong	.	ADAM20	59	.	NM_003814	exon2	c.A1863G	p.V621V	GGGAATTACTCCC	.	PASS	Atlas-SNP
SLCO6A1	133482	hgsc.bcm.edu	37	5	101724448	101724448	+	Missense_Mutation	SNP	G	G	C	rs10055840	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	295	157	301	0	0.532203	0	G|0.778;C|0.222	0.222	strong	.	SLCO6A1	153	.	NM_173488	exon12	c.C1961G	p.T654R	CGTCCTGTGTGTC	.	PASS	Atlas-SNP
SLIT3	6586	hgsc.bcm.edu	37	5	168180047	168180047	+	Missense_Mutation	SNP	C	C	T	rs34260167	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	121	175	0	0.614213	0	C|0.994;T|0.006	0.006	strong	.	SLIT3	224	.	NM_001271946	exon18	c.G1886A	p.S629N	ACCGAACTCAGGC	.	PASS	Atlas-SNP
CARHSP1	23589	hgsc.bcm.edu	37	16	8953081	8953081	+	Silent	SNP	C	C	G	rs8097	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	228	208	1	1	0.00480769	C|0.436;G|0.564	0.564	strong	.	CARHSP1	12	.	NM_001042476	exon2	c.G105C	p.R35R	GTTGCCCCGCAGA	.	PASS	Atlas-SNP
ARAP1	116985	hgsc.bcm.edu	37	11	72408657	72408657	+	Silent	SNP	C	C	T	rs2291289	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	214	196	0	1	0	C|0.692;T|0.308	0.308	strong	.	ARAP1	168	.	NM_001040118	exon20	c.G2775A	p.L925L	CTCCACCAGCACC	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	37	1	185984517	185984517	+	Silent	SNP	T	T	C	rs6665753	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	43	109	0	0.34127	0	T|0.661;C|0.339	0.339	strong	.	HMCN1	797	.	NM_031935	exon31	c.T4857C	p.H1619H	GTGTCATGTAGCC	.	PASS	Atlas-SNP
CTNNA2	1496	hgsc.bcm.edu	37	2	80801346	80801346	+	Silent	SNP	T	T	C	rs2228460	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235	138	190	0	0.587234	0	T|0.724;C|0.276	0.276	strong	.	CTNNA2	462	.	NM_001164883	exon13	c.T1800C	p.V600V	CAACGTTCCTCAA	.	PASS	Atlas-SNP
TRIM4	89122	hgsc.bcm.edu	37	7	99500899	99500899	+	Silent	SNP	T	T	C	rs2247762	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	50	83	0	0.537634	0	T|0.658;C|0.342	0.342	strong	.	TRIM4	33	.	NM_033017	exon6	c.A861G	p.V287V	CACCTTTACAGCT	.	PASS	Atlas-SNP
LRR1	122769	hgsc.bcm.edu	37	14	50074122	50074122	+	Missense_Mutation	SNP	T	T	A	rs17121605	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	39	84	0	0.428571	0	T|0.789;A|0.211	0.211	strong	.	LRR1	35	.	NM_152329	exon3	c.T287A	p.I96N	AGGCCATTTCCAG	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43483981	43483981	+	Missense_Mutation	SNP	G	G	C	rs61756574	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	71	129	0	0.493056	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
ITM2C	81618	hgsc.bcm.edu	37	2	231738269	231738269	+	Silent	SNP	G	G	A	rs2289233	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	157	162	1	0.993671	0.00617284	G|0.534;A|0.466	0.466	strong	.	ITM2C	17	.	NM_030926	exon2	c.G258A	p.A86A	CCTTGCGCAGGTG	.	PASS	Atlas-SNP
OGFRL1	79627	hgsc.bcm.edu	37	6	72006512	72006512	+	Silent	SNP	T	T	C	rs2273888	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	115	152	0	1	0	T|0.820;C|0.180	0.180	strong	.	OGFRL1	44	.	NM_024576	exon6	c.T684C	p.H228H	TCAGCATCTGAAT	.	PASS	Atlas-SNP
TRIM27	5987	hgsc.bcm.edu	37	6	28891176	28891176	+	Silent	SNP	T	T	C	rs2230683	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	10	57	0	0.30303	0	T|0.950;C|0.050	0.050	strong	.	TRIM27	26	.	NM_006510	exon1	c.A234G	p.V78V	CTGCTTTACCAGT	.	PASS	Atlas-SNP
ZNF607	84775	hgsc.bcm.edu	37	19	38202515	38202515	+	Missense_Mutation	SNP	G	G	A	rs12461753	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	59	92	0	0.561905	0	G|0.848;A|0.152	0.152	strong	.	ZNF607	82	.	NM_001172677	exon2	c.C5T	p.S2F	ACATAGGACATGG	.	PASS	Atlas-SNP
OR10G8	219869	hgsc.bcm.edu	37	11	123900411	123900411	+	Missense_Mutation	SNP	G	G	A	rs202220125		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	457	9	368	0	0.0196937	0	G|0.999;A|0.001	0.001	weak	OR10G8,right_upper_lobe,carcinoma,-2,2	OR10G8	132	2	NM_001004464	exon1	c.G82A	p.V28I	TTTGGAGTCTTCC	.	scavenged	Atlas-SNP
SERPINA10	51156	hgsc.bcm.edu	37	14	94756450	94756450	+	Missense_Mutation	SNP	T	T	A	rs2232700	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	67	133	0	0.471831	0	T|0.775;N|0.000	.	strong	.	SERPINA10	83	.	NM_001100607	exon2	c.A481T	p.T161S	CCTGTGTGAGGCC	.	PASS	Atlas-SNP
EHBP1L1	254102	hgsc.bcm.edu	37	11	65351074	65351074	+	Silent	SNP	G	G	A	rs10896018	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	67	120	0	0.553719	0	G|0.705;A|0.295	0.295	strong	.	EHBP1L1	64	.	NM_001099409	exon9	c.G2931A	p.A977A	GGAAGCGGAGGCT	.	PASS	Atlas-SNP
AKNA	80709	hgsc.bcm.edu	37	9	117122202	117122202	+	Silent	SNP	C	C	T	rs3748177	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	71	146	0	0.430303	0	C|0.587;T|0.413	0.413	strong	AKNA,NS,adenoma,0,2	AKNA	119	2	NM_030767	exon10	c.G2265A	p.E755E	AACTTGCTCCATC	.	PASS	Atlas-SNP
FSD2	123722	hgsc.bcm.edu	37	15	83447631	83447631	+	Missense_Mutation	SNP	T	T	G	rs4779061	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	79	131	0	0.484663	0	T|0.807;G|0.193	0.193	strong	.	FSD2	45	.	NM_001007122	exon6	c.A998C	p.K333T	AGGAATTTCCCGA	.	PASS	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	37	11	103029516	103029516	+	Missense_Mutation	SNP	A	A	G	rs688906	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	126	100	0	0.976744	0	A|0.351;G|0.649	0.649	strong	.	DYNC2H1	246	.	NM_001377	exon27	c.A4238G	p.K1413R	GTCAGAAATCATT	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177905469	177905469	+	Missense_Mutation	SNP	C	C	A	rs7522194	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	335	190	261	0	0.567164	0	C|0.807;A|0.193	0.193	strong	.	SEC16B	92	.	NM_033127	exon20	c.G2535T	p.Q845H	AGGAGGCTGGGAA	.	PASS	Atlas-SNP
BAGE3	85318	hgsc.bcm.edu	37	21	11049617	11049617	+	Missense_Mutation	SNP	C	C	G	rs2740327	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	604	39	482	0	0.0645695	0	C|0.994;G|0.006	0.006	strong	.	.	.	.	NM_182481	exon4	c.G284C	p.R95T	ATCTTCCTTCGCT	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140993885	140993885	+	Missense_Mutation	SNP	C	C	T	rs74847167	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	327	215	822	2	0.657492	0.00243309	C|0.989;T|0.011	0.011	strong	.	MAGEC1	317	.	NM_005462	exon4	c.C695T	p.P232L	AGTCTCCTCTCCA	.	PASS	Atlas-SNP
INPP5A	3632	hgsc.bcm.edu	37	10	134540400	134540400	+	Silent	SNP	C	C	T	rs945943	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	41	109	0	0.386792	0	C|0.917;T|0.083	0.083	strong	.	INPP5A	77	.	NM_005539	exon9	c.C723T	p.S241S	CAAGTCCGTCGTG	.	PASS	Atlas-SNP
GJD3	125111	hgsc.bcm.edu	37	17	38519831	38519831	+	Silent	SNP	G	G	T	rs141158879	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	22	33	0	0.458333	0	G|0.992;T|0.008	0.008	strong	.	GJD3	2	.	NM_152219	exon1	c.C237A	p.L79L	GTGGAAGAGCCAG	.	PASS	Atlas-SNP
CHORDC1	26973	hgsc.bcm.edu	37	11	89935586	89935586	+	Missense_Mutation	SNP	G	G	T	rs1045861	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	248	304	0	0.988048	0	G|0.384;T|0.616	0.616	strong	.	CHORDC1	34	.	NM_012124	exon11	c.C986A	p.A329D	GTTGTGGCATCTT	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	216462662	216462662	+	Missense_Mutation	SNP	T	T	A	rs1805048	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	73	138	0	0.514085	0	T|0.942;A|0.058	0.058	strong	.	USH2A	1168	.	NM_007123	exon11	c.A1931T	p.D644V	ACTGTATCACAGT	.	PASS	Atlas-SNP
CD300LB	124599	hgsc.bcm.edu	37	17	72521897	72521897	+	Silent	SNP	G	G	A	rs17553512	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	74	182	0	0.490066	0	G|0.609;A|0.391	0.391	strong	.	CD300LB	38	.	NM_174892	exon2	c.C471T	p.I157I	GTCAACGATCACT	.	PASS	Atlas-SNP
ASGR2	433	hgsc.bcm.edu	37	17	7012079	7012079	+	Missense_Mutation	SNP	C	C	T	rs2304978	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	86	189	0	0.457447	0	C|0.777;T|0.223	0.223	strong	ASGR2,NS,carcinoma,0,2	ASGR2	38	2	NM_080912	exon3	c.G253A	p.G85R	GGCCCCCGTGACC	.	PASS	Atlas-SNP
PRKD2	25865	hgsc.bcm.edu	37	19	47219450	47219450	+	Silent	SNP	A	A	G	rs56034494	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	76	197	0	0.391753	0	A|0.980;G|0.020	0.020	strong	.	PRKD2	94	.	NM_016457	exon1	c.T178C	p.L60L	CGGGCAACAGCAC	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126241253	126241253	+	Silent	SNP	G	G	C	rs7657251	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	72	74	0	1	0	G|0.905;C|0.095	0.095	strong	.	FAT4	1752	.	NM_024582	exon1	c.G3687C	p.V1229V	ACAAGTGTTAAGA	.	PASS	Atlas-SNP
CCDC33	80125	hgsc.bcm.edu	37	15	74622533	74622533	+	Missense_Mutation	SNP	A	A	G	rs2277603	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	88	185	0	0.442211	0	A|0.887;G|0.113;T|0.000	0.113	strong	.	CCDC33	160	.	NM_025055	exon12	c.A1294G	p.M432V	CAGGAGATGAACA	.	PASS	Atlas-SNP
ANO9	338440	hgsc.bcm.edu	37	11	421036	421036	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	43	70	0	0.511905	0	.	.	none	.	ANO9	61	.	NM_001012302	exon17	c.G1399A	p.A467T	CGCTGGCGTGGCA	.	PASS	Atlas-SNP
UNC13C	440279	hgsc.bcm.edu	37	15	54847677	54847677	+	Silent	SNP	C	C	T	rs11639005	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	117	90	0	0.991525	0	C|0.625;T|0.375	0.375	strong	.	UNC13C	674	.	NM_001080534	exon27	c.C5925T	p.C1975C	ACAATGCGCTATA	.	PASS	Atlas-SNP
SCAMP2	10066	hgsc.bcm.edu	37	15	75146371	75146371	+	Silent	SNP	C	C	T	rs77456595	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	64	110	0	0.481203	0	C|0.967;T|0.033	0.033	strong	.	SCAMP2	18	.	NM_005697	exon3	c.G216A	p.P72P	GGGGGTCGGCTGG	.	PASS	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	37	6	90368380	90368380	+	Silent	SNP	G	G	A	rs34732313	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	101	285	0	0.469767	0	G|0.886;A|0.114	0.114	strong	.	MDN1	478	.	NM_014611	exon89	c.C14970T	p.A4990A	TTCATCGGCTTCC	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31598489	31598489	+	Silent	SNP	A	A	G	rs3130626	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	114	163	0	0.495652	0	A|0.858;G|0.142	0.142	strong	.	PRRC2A	152	.	NM_004638	exon15	c.A2376G	p.V792V	CTGGGTAGGAGAT	.	PASS	Atlas-SNP
EDA2R	60401	hgsc.bcm.edu	37	X	65822607	65822607	+	Missense_Mutation	SNP	T	T	C	rs1385698	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	146	275	0	0.993197	0	T|0.073;C|0.927	0.927	strong	.	EDA2R	30	.	NM_001242310	exon4	c.A385G	p.T129A	TGGGTGTATCTGC	.	PASS	Atlas-SNP
LAD1	3898	hgsc.bcm.edu	37	1	201355761	201355761	+	Missense_Mutation	SNP	A	A	G	rs12088790	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	82	126	0	0.522293	0	A|0.884;G|0.116	0.116	strong	.	LAD1	42	.	NM_005558	exon3	c.T728C	p.L243P	GGGGCCAGCGACT	.	PASS	Atlas-SNP
MCC	4163	hgsc.bcm.edu	37	5	112384802	112384802	+	Silent	SNP	G	G	A	rs6594664	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	138	152	0	1	0	G|0.141;A|0.859	0.859	strong	.	MCC	234	.	NM_001085377	exon16	c.C2643T	p.D881D	AGGTTTGTCTTTG	.	PASS	Atlas-SNP
NRG1	3084	hgsc.bcm.edu	37	8	32505822	32505822	+	Missense_Mutation	SNP	C	C	T	rs201098616		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	3	250	2	0.0114943	0.008	.	.	weak	NRG1_ENST00000520502,rectum,carcinoma,-1,1	NRG1	260	1	NM_013959	exon1	c.C586T	p.R196W	CCCACCCGGAACC	.	scavenged	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	37	19	41351211	41351211	+	Silent	SNP	G	G	A	rs150586234	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235	18	213	0	0.0765957	0	G|0.998;A|0.002	0.002	strong	.	CYP2A6	69	.	NM_000762	exon7	c.C1149T	p.F383F	GAGGAAGAAATCC	.	PASS	Atlas-SNP
FAM184A	79632	hgsc.bcm.edu	37	6	119327632	119327632	+	Missense_Mutation	SNP	C	C	T	rs17827619	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	62	103	0	0.579439	0	C|0.913;T|0.087	0.087	strong	.	FAM184A	109	.	NM_024581	exon7	c.G1795A	p.D599N	GAGCATCCTTGGT	.	PASS	Atlas-SNP
LPO	4025	hgsc.bcm.edu	37	17	56332327	56332327	+	Missense_Mutation	SNP	G	G	A	rs2301870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	72	106	0	0.590164	0	G|0.838;A|0.162	0.162	strong	LPO,NS,carcinoma,0,1	LPO	73	1	NM_006151	exon9	c.G1261A	p.V421M	GCCTTCGTGCAGG	.	PASS	Atlas-SNP
RNF25	64320	hgsc.bcm.edu	37	2	219528995	219528995	+	Silent	SNP	T	T	C	rs13022721	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	70	140	0	0.583333	0	T|0.851;C|0.149	0.149	strong	RNF25,bladder,carcinoma,-1,1	RNF25	40	1	NM_022453	exon10	c.A1065G	p.P355P	TCCCTTTGGGTGC	.	PASS	Atlas-SNP
OR10H5	284433	hgsc.bcm.edu	37	19	15905468	15905468	+	Missense_Mutation	SNP	T	T	G	rs62106065	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	102	337	0	0.447368	0	T|0.939;G|0.061	0.061	strong	OR10H5,NS,carcinoma,-2,1	OR10H5	49	1	NM_001004466	exon1	c.T610G	p.C204G	TTGGTGTGTATCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513812	195513812	+	Missense_Mutation	SNP	T	T	A	rs201142885	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	24	190	0	0.136364	0	T|0.976;A|0.023	0.023	strong	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.A4639T	p.T1547S	CACCTGTGGATGC	.	scavenged	Atlas-SNP
ACSM1	116285	hgsc.bcm.edu	37	16	20635418	20635418	+	Silent	SNP	C	C	T	rs3743690	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	102	162	0	0.576271	0	C|0.852;T|0.148	0.148	strong	.	ACSM1	118	.	NM_052956	exon12	c.G1647A	p.K549K	ACTCACCTTCCTT	.	PASS	Atlas-SNP
ANKRD33	341405	hgsc.bcm.edu	37	12	52285086	52285086	+	Missense_Mutation	SNP	G	G	A	rs3180417	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	34	55	0	0.507463	0	G|0.851;A|0.149	0.149	strong	.	ANKRD33	33	.	NM_001130015	exon6	c.G781A	p.V261I	ACAGAAGTAGGGG	.	PASS	Atlas-SNP
WNT9B	7484	hgsc.bcm.edu	37	17	44952531	44952531	+	Silent	SNP	G	G	T	rs34072914	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	69	148	0	0.534884	0	G|0.965;T|0.035	0.035	strong	WNT9B,colon,carcinoma,0,3	WNT9B	37	3	NM_003396	exon3	c.G399T	p.R133R	GGCCCGGGCCTGC	.	PASS	Atlas-SNP
L2HGDH	79944	hgsc.bcm.edu	37	14	50778816	50778816	+	Missense_Mutation	SNP	A	A	C	rs2275591	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	16	61	0	0.470588	0	A|0.430;C|0.570	0.570	strong	L2HGDH,NS,carcinoma,0,1	L2HGDH	33	1	NM_024884	exon1	c.T53G	p.L18R	GCGAAAAGCCCGC	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60905878	60905878	+	Missense_Mutation	SNP	A	A	G	rs3810548	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	34	82	0	1	0	A|0.193;G|0.807	0.807	strong	.	LAMA5	268	.	NM_005560	exon30	c.T3773C	p.M1258T	GGGGACATGGCTG	.	PASS	Atlas-SNP
ARHGEF5	7984	hgsc.bcm.edu	37	7	144062632	144062632	+	Nonsense_Mutation	SNP	C	C	G	rs202036368		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	42	242	0	0.2625	0	.	.	weak	ARHGEF5,NS,carcinoma,0,1	ARHGEF5	73	1	NM_005435	exon2	c.C2870G	p.S957X	GGGTCTCAGAACA	.	scavenged	Atlas-SNP
NACA2	342538	hgsc.bcm.edu	37	17	59668352	59668352	+	Missense_Mutation	SNP	C	C	T	rs17531723	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	104	223	0	0.509804	0	C|0.884;T|0.116	0.116	strong	NACA2,NS,carcinoma,0,1	NACA2	33	1	NM_199290	exon1	c.G190A	p.V64I	TACCGACTGGTTC	.	PASS	Atlas-SNP
MAST1	22983	hgsc.bcm.edu	37	19	12978655	12978655	+	Silent	SNP	C	C	T	rs56114354	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	18	8	25	0	0.444444	0	C|0.990;T|0.010	0.010	strong	.	MAST1	214	.	NM_014975	exon20	c.C2430T	p.P810P	CGCCCCCCAAGAG	.	PASS	Atlas-SNP
ZSCAN21	7589	hgsc.bcm.edu	37	7	99654689	99654689	+	Silent	SNP	G	G	A	rs11558476	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	43	69	0	0.551282	0	G|0.725;A|0.275	0.275	strong	.	ZSCAN21	29	.	NM_145914	exon2	c.G60A	p.Q20Q	GGAGCAGGTGGGG	.	PASS	Atlas-SNP
RREB1	6239	hgsc.bcm.edu	37	6	7247344	7247344	+	Missense_Mutation	SNP	C	C	A	rs35742417	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	79	101	0	0.424731	0	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	.	PASS	Atlas-SNP
OSBPL6	114880	hgsc.bcm.edu	37	2	179188959	179188959	+	Missense_Mutation	SNP	G	G	A	rs35032920	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	36	66	0	0.433735	0	G|0.960;A|0.040	0.040	strong	.	OSBPL6	178	.	NM_001201482	exon4	c.G158A	p.R53Q	TAAGTCGGCAATT	.	PASS	Atlas-SNP
UQCRB	7381	hgsc.bcm.edu	37	8	97243720	97243720	+	Silent	SNP	G	G	A	rs2292835	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	8	8	2	0	1	0	G|0.748;A|0.252	0.252	strong	.	UQCRB	17	.	NM_001254752	exon4	c.C282T	p.H94H	AGCAGAGTGCAGA	.	PASS	Atlas-SNP
ZCCHC14	23174	hgsc.bcm.edu	37	16	87446053	87446053	+	Silent	SNP	G	G	A	rs2042395	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	31	75	0	0.54386	0	G|0.485;A|0.515	0.515	strong	ZCCHC14,NS,lymphoid_neoplasm,0,1	ZCCHC14	87	1	NM_015144	exon12	c.C1863T	p.A621A	CGTGGCGGCCGTG	.	PASS	Atlas-SNP
ABCA10	10349	hgsc.bcm.edu	37	17	67210992	67210992	+	Missense_Mutation	SNP	T	T	C	rs11657804	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	58	38	0	1	0	T|0.719;C|0.281	0.281	strong	.	ABCA10	209	.	NM_080282	exon10	c.A859G	p.I287V	GTGTAATCTGAGA	.	PASS	Atlas-SNP
FOXD4L1	200350	hgsc.bcm.edu	37	2	114257266	114257266	+	Missense_Mutation	SNP	C	C	T	rs142136016	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	637	183	702	0	0.287284	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
DEF6	50619	hgsc.bcm.edu	37	6	35287755	35287755	+	Silent	SNP	G	G	A	rs61734578	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	49	79	0	0.4375	0	G|0.969;A|0.031	0.031	strong	.	DEF6	36	.	NM_022047	exon9	c.G1542A	p.E514E	GGAGGAGGTGCGG	.	PASS	Atlas-SNP
TRIP12	9320	hgsc.bcm.edu	37	2	230723777	230723777	+	Silent	SNP	G	G	C	rs544480	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	92	173	0	0.5	0	G|0.817;C|0.183	0.183	strong	.	TRIP12	207	.	NM_004238	exon3	c.C612G	p.S204S	AGACGAGGAGGAA	.	PASS	Atlas-SNP
ZNF215	7762	hgsc.bcm.edu	37	11	6976988	6976988	+	Silent	SNP	A	A	T	rs2239731	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	41	79	0	0.482353	0	T|0.656;N|0.000	0.656	strong	.	ZNF215	72	.	NM_013250	exon7	c.A780T	p.G260G	AAGTGGACACCCT	.	PASS	Atlas-SNP
SHC1	6464	hgsc.bcm.edu	37	1	154938076	154938076	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	288	37	239	0	0.128472	0	.	.	none	.	SHC1	91	.	NM_001130040	exon11	c.C1569T	p.L523L	GCCAGTGAGCACA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195510996	195510996	+	Silent	SNP	G	G	A	rs199626832	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	504	70	206	0	0.138889	0	G|0.994;A|0.006	0.006	strong	MUC4_ENST00000463781,caecum,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C7455T	p.D2485D	CGAAGCGTCGGTG	.	PASS	Atlas-SNP
TLE3	7090	hgsc.bcm.edu	37	15	70345626	70345626	+	Silent	SNP	C	C	T	rs1057865	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	109	209	0	0.514151	0	C|0.639;T|0.361	0.361	strong	.	TLE3	104	.	NM_005078	exon17	c.G1923A	p.T641T	GCGCACCGTGTTG	.	PASS	Atlas-SNP
SEMA3E	9723	hgsc.bcm.edu	37	7	83029438	83029438	+	Silent	SNP	C	C	T	rs2722974	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	328	161	331	0	0.490854	0	C|0.661;N|0.000	.	strong	.	SEMA3E	125	.	NM_012431	exon11	c.G1272A	p.L424L	TTTTACCAATATT	.	PASS	Atlas-SNP
PLXNA1	5361	hgsc.bcm.edu	37	3	126726705	126726705	+	Silent	SNP	A	A	G	rs9876615	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	44	74	0	0.52381	0	A|0.893;G|0.107	0.107	strong	PLXNA1,NS,carcinoma,0,1	PLXNA1	185	1	NM_032242	exon8	c.A2061G	p.T687T	GTGCACACACAAC	.	PASS	Atlas-SNP
BRD2	6046	hgsc.bcm.edu	37	6	32948426	32948426	+	Silent	SNP	C	C	T	rs2071876	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	46	103	0	0.368	0	T|0.061;G|0.000;C|0.938	0.061	strong	.	BRD2	70	.	NM_001199455	exon13	c.C2442T	p.S814S	CAGCTCCAGCTCA	.	PASS	Atlas-SNP
SLC52A3	113278	hgsc.bcm.edu	37	20	744308	744308	+	Missense_Mutation	SNP	T	T	C	rs3746802	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	41	100	0	0.471264	0	T|0.901;C|0.099	0.099	strong	.	.	.	.	NM_033409	exon3	c.A907G	p.I303V	TATAGATGAAGGC	.	PASS	Atlas-SNP
SLC24A1	9187	hgsc.bcm.edu	37	15	65917220	65917220	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	25	156	0	0.132979	0	.	.	none	.	SLC24A1	58	.	NM_004727	exon2	c.G802T	p.V268F	GCAAACGTCTTGA	.	PASS	Atlas-SNP
FAM86A	196483	hgsc.bcm.edu	37	16	5140561	5140561	+	Silent	SNP	C	C	T	rs9673770	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	105	210	0	0.530303	0	C|0.896;T|0.104	0.104	strong	FAM86A,NS,carcinoma,0,1	FAM86A	32	1	NM_201400	exon5	c.G348A	p.S116S	GCCTCCCGAGGGC	.	PASS	Atlas-SNP
TMEM82	388595	hgsc.bcm.edu	37	1	16069644	16069644	+	Silent	SNP	C	C	T	rs11584945	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	46	86	0	0.638889	0	C|0.766;T|0.234	0.234	strong	.	TMEM82	30	.	NM_001013641	exon3	c.C291T	p.L97L	GGTGCTCGAGTTC	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140558315	140558315	+	Missense_Mutation	SNP	G	G	C	rs17844488		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	487	47	356	0	0.0965092	0	.	.	weak	.	PCDHB8	199	.	NM_019120	exon1	c.G700C	p.V234L	GAAGTTGTCGATG	.	PASS	Atlas-SNP
MYEOV	26579	hgsc.bcm.edu	37	11	69063510	69063510	+	Missense_Mutation	SNP	G	G	A	rs11539762	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	73	179	0	0.486667	0	G|0.878;A|0.122	0.122	strong	MYEOV,colon,carcinoma,0,1	MYEOV	42	1	NM_138768	exon3	c.G593A	p.R198Q	GGGCGCGAATGGA	.	PASS	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28620120	28620120	+	Silent	SNP	C	C	T	rs34513973	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1164	155	324	0	0.133162	0	C|0.965;T|0.035	0.035	strong	SULT1A1,NS,carcinoma,-1,2	SULT1A1	53	2	NM_177534	exon1	c.G57A	p.P19P	GATGAGCGGGACC	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62196033	62196033	+	Missense_Mutation	SNP	C	C	T	rs3810487	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	29	51	0	0.659091	0	C|0.809;T|0.191	0.191	strong	.	.	.	.	NM_001037335	exon9	c.G4142A	p.R1381K	CCGTCCCTGGGCA	.	PASS	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39914225	39914225	+	Missense_Mutation	SNP	G	G	C	rs201914405	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	23	78	0	0.534884	0	.	.	weak	PLEKHG2_ENST00000458508,colon,carcinoma,0,3	PLEKHG2	329	3	NM_022835	exon18	c.G2531C	p.R844P	CCCCGCGCCGCCG	.	PASS	Atlas-SNP
ZNF845	91664	hgsc.bcm.edu	37	19	53854397	53854397	+	Missense_Mutation	SNP	G	G	C	rs10415799	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	240	253	0	0.995851	0	G|0.643;C|0.357	0.357	strong	ZNF845,NS,carcinoma,0,6	ZNF845	101	6	NM_138374	exon4	c.G469C	p.E157Q	CAGACCGAAGGGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	47	87	0	0.61039	0	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	.	PASS	Atlas-SNP
JAK1	3716	hgsc.bcm.edu	37	1	65303659	65303659	+	Silent	SNP	C	C	T	rs12129819	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	67	157	0	0.5	0	C|0.937;T|0.063	0.063	strong	.	JAK1	209	.	NM_002227	exon22	c.G3096A	p.K1032K	ATACTCCTTATCG	.	PASS	Atlas-SNP
TRIM9	114088	hgsc.bcm.edu	37	14	51446216	51446216	+	Missense_Mutation	SNP	T	T	G	rs2275462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	77	128	0	0.57037	0	T|0.451;G|0.549	0.549	strong	TRIM9_ENST00000338969,NS,carcinoma,-2,2	TRIM9	188	2	NM_015163	exon9	c.A1959C	p.L653F	TCTATTTAAGTCG	.	PASS	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	37	15	40916801	40916801	+	Missense_Mutation	SNP	A	A	G	rs16970911	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	44	72	0	0.44	0	A|0.945;G|0.055	0.055	strong	.	CASC5	269	.	NM_170589	exon11	c.A4417G	p.T1473A	TTCTCAACCGACC	.	PASS	Atlas-SNP
FRA10AC1	118924	hgsc.bcm.edu	37	10	95454681	95454681	+	Missense_Mutation	SNP	G	G	C	rs2275438	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	79	75	0	0.9875	0	G|0.606;C|0.394	0.394	strong	.	FRA10AC1	68	.	NM_145246	exon5	c.C233G	p.T78R	AACTTTGTATGTC	.	PASS	Atlas-SNP
PSG4	5672	hgsc.bcm.edu	37	19	43708245	43708245	+	Missense_Mutation	SNP	G	G	C	rs3170216	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	262	132	156	0	0.503817	0	G|0.800;C|0.200	0.200	strong	.	PSG4	129	.	NM_002780	exon2	c.A223G	p.T75A	GGTAGAGGTATGT	.	PASS	Atlas-SNP
NUP153	9972	hgsc.bcm.edu	37	6	17675246	17675246	+	Missense_Mutation	SNP	T	T	C	rs2228375	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	107	82	0	1	0	T|0.840;C|0.160	0.160	strong	.	NUP153	116	.	NM_005124	exon5	c.A742G	p.I248V	TAAGGATTGAAGA	.	PASS	Atlas-SNP
ITPR1	3708	hgsc.bcm.edu	37	3	4842231	4842231	+	Silent	SNP	C	C	T	rs2291862	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	78	131	0	0.47561	0	C|0.722;T|0.278	0.278	strong	.	ITPR1	659	.	NM_001168272	exon53	c.C7009T	p.L2337L	CTACGACTGATAT	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238253065	238253065	+	Silent	SNP	C	C	T	rs2291795	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	96	198	0	0.470588	0	C|0.865;T|0.135	0.135	strong	.	COL6A3	608	.	NM_004369	exon36	c.G7596A	p.K2532K	TGAGAGCTTGAGC	.	PASS	Atlas-SNP
OR2J2	26707	hgsc.bcm.edu	37	6	29142054	29142054	+	Silent	SNP	C	C	G	rs3129159	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	499	297	386	1	0.59519	0.00259067	C|0.567;G|0.433	0.433	strong	.	OR2J2	51	.	NM_030905	exon1	c.C642G	p.L214L	CATTCTCATTCTC	.	PASS	Atlas-SNP
ART4	420	hgsc.bcm.edu	37	12	14993854	14993854	+	Silent	SNP	A	A	G	rs1861698	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	58	91	0	0.651685	0	A|0.694;G|0.306	0.306	strong	ART4,NS,carcinoma,0,1	ART4	27	1	NM_021071	exon2	c.T378C	p.Y126Y	CAATGTATAAAAC	.	PASS	Atlas-SNP
AMPD1	270	hgsc.bcm.edu	37	1	115236057	115236057	+	Nonsense_Mutation	SNP	G	G	A	rs17602729	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	114	229	0	0.655172	0	G|0.923;A|0.077	0.077	strong	AMPD1_ENST00000520113,NS,carcinoma,0,2	AMPD1	223	2	NM_000036	exon2	c.C133T	p.Q45X	ACTCACGTTTCTC	.	PASS	Atlas-SNP
GGTLC2	91227	hgsc.bcm.edu	37	22	22988849	22988849	+	Missense_Mutation	SNP	G	G	T	rs149057858	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	480	18	167	0	0.0375	0	G|0.996;T|0.004	0.004	strong	GGTLC2,NS,carcinoma,0,1	GGTLC2	20	1	NM_199127	exon1	c.G34T	p.A12S	CTCCGGGCCCAGA	.	scavenged	Atlas-SNP
KRT6C	286887	hgsc.bcm.edu	37	12	52863213	52863213	+	Missense_Mutation	SNP	C	C	T	rs412533	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	61	147	0	0.429577	0	C|0.723;T|0.277	0.277	strong	.	KRT6C	55	.	NM_173086	exon8	c.G1441A	p.V481I	GTCCAACGCCTTC	.	PASS	Atlas-SNP
NHSL1	57224	hgsc.bcm.edu	37	6	138753337	138753337	+	Silent	SNP	C	C	T	rs2039121	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	59	91	0	1	0	C|0.236;T|0.764	0.764	strong	.	NHSL1	99	.	NM_020464	exon5	c.G2157A	p.K719K	GCCACTCTTGCCT	.	PASS	Atlas-SNP
FAM179A	165186	hgsc.bcm.edu	37	2	29226498	29226498	+	Silent	SNP	G	G	A	rs12613325	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	248	241	1	0.995984	0.00414938	G|0.368;A|0.632	0.632	strong	.	FAM179A	106	.	NM_199280	exon6	c.G780A	p.P260P	CAGCCCGTTACCT	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105418264	105418264	+	Missense_Mutation	SNP	G	G	A	rs55650155	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	341	205	267	0	0.601173	0	G|0.607;A|0.393	0.393	strong	AHNAK2_ENST00000333244,NS,carcinoma,+1,1	AHNAK2	719	1	NM_138420	exon7	c.C3524T	p.A1175V	GCTGACGCCCCGA	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204410	56204410	+	Silent	SNP	C	C	T	rs55910046	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	49	213	0	0.333333	0	C|0.535;T|0.465	0.465	strong	ALPK2_ENST00000361673,colon,carcinoma,0,1	ALPK2	487	1	NM_052947	exon5	c.G3009A	p.R1003R	AGTCTCCCTGGTC	.	PASS	Atlas-SNP
FKBP1A	2280	hgsc.bcm.edu	37	20	1350709	1350709	+	Silent	SNP	T	T	C	rs8392	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	46	77	0	0.547619	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
TANC1	85461	hgsc.bcm.edu	37	2	160086692	160086692	+	Silent	SNP	A	A	G	rs3821296	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	88	101	0	1	0	A|0.569;G|0.431	0.431	strong	.	TANC1	157	.	NM_033394	exon27	c.A4755G	p.T1585T	GGGAACAGGTACT	.	PASS	Atlas-SNP
DYRK4	8798	hgsc.bcm.edu	37	12	4705317	4705317	+	Silent	SNP	C	C	T	rs3741925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	41	76	0	0.506173	0	C|0.758;T|0.242	0.242	strong	.	DYRK4	75	.	NM_003845	exon5	c.C285T	p.V95V	ACAGGTCCTGCAT	.	PASS	Atlas-SNP
SNCG	6623	hgsc.bcm.edu	37	10	88719789	88719789	+	Silent	SNP	C	C	G	rs760113	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	99	187	0	0.447964	0	C|0.759;G|0.241	0.241	strong	.	SNCG	8	.	NM_003087	exon3	c.C195G	p.A65A	CAACGCCGTGAGC	.	PASS	Atlas-SNP
PPP1R14D	54866	hgsc.bcm.edu	37	15	41120675	41120675	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	69	143	0	0.463087	0	.	.	none	.	PPP1R14D	8	.	NM_017726	exon1	c.C165G	p.S55R	CAGGCGGCTGGGT	.	PASS	Atlas-SNP
ABCA2	20	hgsc.bcm.edu	37	9	139906359	139906359	+	Silent	SNP	G	G	A	rs2271862	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	57	85	0	1	0	G|0.322;A|0.678	0.678	strong	.	ABCA2	113	.	NM_212533	exon35	c.C5562T	p.H1854H	CTGCAGGTGCTTG	.	PASS	Atlas-SNP
FAM71B	153745	hgsc.bcm.edu	37	5	156590355	156590355	+	Silent	SNP	A	A	G	rs31220	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	40	85	0	0.377358	0	A|0.813;G|0.187	0.187	strong	.	FAM71B	145	.	NM_130899	exon2	c.T921C	p.G307G	CACTTGACCTGGG	.	PASS	Atlas-SNP
TCEB3	6924	hgsc.bcm.edu	37	1	24083494	24083494	+	Silent	SNP	C	C	T	rs2076345	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	85	212	1	0.518293	0.00471698	C|0.764;T|0.236	0.236	strong	.	TCEB3	61	.	NM_003198	exon10	c.C2214T	p.S738S	CAGTAGCATCAGC	.	PASS	Atlas-SNP
ADCY8	114	hgsc.bcm.edu	37	8	131921956	131921956	+	Silent	SNP	A	A	G	rs12547243	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	185	164	0	0.994624	0	A|0.424;G|0.576	0.576	strong	.	ADCY8	291	.	NM_001115	exon6	c.T1638C	p.P546P	TTACCCAGGGATT	.	PASS	Atlas-SNP
ZNF416	55659	hgsc.bcm.edu	37	19	58084034	58084034	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	3	144	0	0.0177515	0	.	.	none	ZNF416,NS,carcinoma,0,1	ZNF416	50	1	NM_017879	exon4	c.G1238A	p.G413D	CACTGGCCACACT	.	scavenged	Atlas-SNP
GP6	51206	hgsc.bcm.edu	37	19	55525894	55525894	+	Silent	SNP	G	G	A	rs1671151	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	107	96	0	1	0	G|0.231;A|0.769	0.769	strong	.	GP6	55	.	NM_001083899	exon8	c.C1419T	p.P473P	AAGCACGGGAGGA	.	PASS	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	37	7	157959895	157959895	+	Missense_Mutation	SNP	C	C	T	rs1130496	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	39	71	0	0.513158	0	C|0.653;T|0.347	0.347	strong	.	PTPRN2	243	.	NM_130843	exon6	c.G638A	p.R213H	TCCTCGCGGAGCT	.	PASS	Atlas-SNP
CNN2	1265	hgsc.bcm.edu	37	19	1036444	1036444	+	Silent	SNP	G	G	A	rs930231	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	111	184	0	0.533654	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
MYBPC2	4606	hgsc.bcm.edu	37	19	50957397	50957397	+	Missense_Mutation	SNP	G	G	A	rs25665	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	109	178	0	0.495455	0	G|0.772;A|0.227	0.227	strong	.	MYBPC2	103	.	NM_004533	exon17	c.G1870A	p.V624I	AACCCCGTCGGCG	.	PASS	Atlas-SNP
R3HDM2	22864	hgsc.bcm.edu	37	12	57649840	57649840	+	Silent	SNP	C	C	T	rs4075325	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	339	170	365	1	0.501475	0.00273973	C|0.612;T|0.388	0.388	strong	.	R3HDM2	125	.	NM_014925	exon21	c.G2523A	p.K841K	TCCATGCTTCAGT	.	PASS	Atlas-SNP
THSD1	55901	hgsc.bcm.edu	37	13	52971718	52971718	+	Missense_Mutation	SNP	G	G	C	rs9536062	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	93	200	0	0.462687	0	G|0.950;C|0.050	0.050	strong	.	THSD1	89	.	NM_199263	exon3	c.C670G	p.R224G	AGTCTCGCCCAAG	.	PASS	Atlas-SNP
TBC1D8	11138	hgsc.bcm.edu	37	2	101638888	101638888	+	Silent	SNP	A	A	G	rs3739014	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	47	114	0	0.431193	0	A|0.446;G|0.554	0.554	strong	.	TBC1D8	169	.	NM_001102426	exon16	c.T2571C	p.D857D	CCGGGCATCTATG	.	PASS	Atlas-SNP
ILVBL	10994	hgsc.bcm.edu	37	19	15229993	15229993	+	Silent	SNP	A	A	G	rs1131177	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	28	75	0	0.4375	0	A|0.839;G|0.161	0.161	strong	ILVBL,NS,carcinoma,0,1	ILVBL	54	1	NM_006844	exon9	c.T1035C	p.D345D	AATGACATCCGCC	.	PASS	Atlas-SNP
GINM1	116254	hgsc.bcm.edu	37	6	149903597	149903597	+	Missense_Mutation	SNP	A	A	G	rs1137086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	102	171	0	0.545455	0	A|0.971;G|0.029	0.029	strong	.	.	.	.	NM_138785	exon7	c.A739G	p.K247E	ATGGAAAAGTTTA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	88	187	0	0.556962	0	T|0.783;C|0.217	0.217	strong	.	PER3	95	.	NM_016831	exon18	c.T3083C	p.M1028T	TGTCCATGGGATT	.	PASS	Atlas-SNP
HKDC1	80201	hgsc.bcm.edu	37	10	71026433	71026433	+	Missense_Mutation	SNP	T	T	C	rs148418934	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	63	113	0	0.492188	0	T|0.998;C|0.002	0.002	strong	.	HKDC1	98	.	NM_025130	exon18	c.T2674C	p.S892P	ATGCTGTCAGAAG	.	PASS	Atlas-SNP
CD163	9332	hgsc.bcm.edu	37	12	7655137	7655137	+	Silent	SNP	A	A	G	rs3210140	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	66	84	0	1	0	A|0.518;G|0.482	0.482	strong	.	CD163	221	.	NM_203416	exon2	c.T70C	p.L24L	GACTCAAGTTGAC	.	PASS	Atlas-SNP
TMBIM1	64114	hgsc.bcm.edu	37	2	219146803	219146803	+	Missense_Mutation	SNP	G	G	A	rs2292553	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	123	258	0	0.462406	0	G|0.579;A|0.421	0.421	strong	.	TMBIM1	20	.	NM_022152	exon2	c.C62T	p.P21L	GGGGGCGGAGGGC	.	PASS	Atlas-SNP
AFAP1L2	84632	hgsc.bcm.edu	37	10	116073696	116073696	+	Silent	SNP	C	C	T	rs3813722	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	200	148	1	0.990099	0.00675676	C|0.396;T|0.604	0.604	strong	.	AFAP1L2	90	.	NM_032550	exon7	c.G726A	p.T242T	CATCGGCGTGATC	.	PASS	Atlas-SNP
KDM6B	23135	hgsc.bcm.edu	37	17	7751778	7751778	+	Silent	SNP	G	G	A	rs3744249	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	24	54	0	0.444444	0	A|0.168;C|0.000;G|0.832	0.168	strong	.	KDM6B	95	.	NM_001080424	exon11	c.G2172A	p.P724P	ACCCCCGCTGAAG	.	PASS	Atlas-SNP
DBI	1622	hgsc.bcm.edu	37	2	120125058	120125058	+	Missense_Mutation	SNP	C	C	T	rs3731607	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	23	55	0	0.425926	0	C|0.815;T|0.185	0.185	strong	.	DBI	10	.	NM_001178017	exon1	c.C146T	p.A49V	ACGGGGCCGGCTG	.	PASS	Atlas-SNP
ADAMTS16	170690	hgsc.bcm.edu	37	5	5200281	5200281	+	Silent	SNP	C	C	T	rs6555335	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	56	111	0	0.405797	0	C|0.270;T|0.730	0.730	strong	.	ADAMTS16	543	.	NM_139056	exon9	c.C1350T	p.C450C	CATGTGCAAAAAG	.	PASS	Atlas-SNP
AFAP1	60312	hgsc.bcm.edu	37	4	7780582	7780582	+	Missense_Mutation	SNP	C	C	T	rs41264705	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	18	51	0	0.346154	0	C|0.800;T|0.200	0.200	strong	.	AFAP1	93	.	NM_001134647	exon14	c.G1804A	p.V602M	ACGCCACGGGGGG	.	PASS	Atlas-SNP
DNAJC30	84277	hgsc.bcm.edu	37	7	73097713	73097713	+	Missense_Mutation	SNP	G	G	A	rs61751896	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	20	36	0	0.47619	0	G|0.967;A|0.033	0.033	strong	DNAJC30,NS,carcinoma,0,1	DNAJC30	12	1	NM_032317	exon1	c.C41T	p.P14L	CTCCAAGGTAACA	.	PASS	Atlas-SNP
C5orf60	285679	hgsc.bcm.edu	37	5	179071893	179071893	+	Silent	SNP	A	A	G	rs4990388	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224	9	196	5	0.0401786	0.0255102	A|0.993;G|0.007	0.007	strong	C5orf60,NS,carcinoma,0,2	C5orf60	24	2	NM_001142306	exon1	c.T129C	p.F43F	CACAACAAAGAGG	.	scavenged	Atlas-SNP
SLC30A9	10463	hgsc.bcm.edu	37	4	42022464	42022464	+	Silent	SNP	C	C	A	rs15857	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	45	108	0	0.441176	0	C|0.359;A|0.641	0.641	strong	.	SLC30A9	58	.	NM_006345	exon4	c.C366A	p.G122G	GTATGGCTCAAAG	.	PASS	Atlas-SNP
KIAA1524	57650	hgsc.bcm.edu	37	3	108303989	108303989	+	Missense_Mutation	SNP	C	C	A	rs34788499	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	48	146	0	0.432432	0	C|0.982;A|0.018	0.018	strong	.	KIAA1524	82	.	NM_020890	exon2	c.G173T	p.C58F	ACAAGGCAACTCA	.	PASS	Atlas-SNP
HEG1	57493	hgsc.bcm.edu	37	3	124732618	124732618	+	Missense_Mutation	SNP	A	A	G	rs6790837	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	222	220	221	1	0.990991	0.00452489	A|0.568;G|0.432	0.432	strong	.	HEG1	109	.	NM_020733	exon6	c.T1805C	p.F602S	GCATGAAAAAAGG	.	PASS	Atlas-SNP
WIPF2	147179	hgsc.bcm.edu	37	17	38416827	38416827	+	Missense_Mutation	SNP	G	G	A	rs142659099	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	44	107	0	0.478261	0	G|0.997;A|0.003	0.003	strong	.	WIPF2	55	.	NM_133264	exon3	c.G104A	p.R35Q	AGCAGCGGGGTCG	.	PASS	Atlas-SNP
GIGYF1	64599	hgsc.bcm.edu	37	7	100279988	100279988	+	Silent	SNP	G	G	A	rs117477530	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	28	65	0	0.4375	0	G|0.998;A|0.002	0.002	strong	.	GIGYF1	113	.	NM_022574	exon21	c.C2718T	p.C906C	CTGCTCGCACCAC	.	PASS	Atlas-SNP
OR10H5	284433	hgsc.bcm.edu	37	19	15905431	15905431	+	Silent	SNP	T	T	C	rs4808381	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	244	359	1	0.995918	0.00278552	T|0.623;C|0.377	0.377	strong	.	OR10H5	49	.	NM_001004466	exon1	c.T573C	p.D191D	TGGAGATGATGTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	116	106	0	0.97479	0	G|0.794;A|0.206	0.206	strong	.	.	.	.	NM_033409	exon3	c.C800T	p.P267L	TCCCGCGGCCGGA	.	PASS	Atlas-SNP
GABRA6	2559	hgsc.bcm.edu	37	5	161128627	161128627	+	Missense_Mutation	SNP	C	C	T	rs34907804	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	81	186	0	0.37156	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
NRAP	4892	hgsc.bcm.edu	37	10	115377290	115377290	+	Missense_Mutation	SNP	T	T	C	rs77678145	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	43	98	0	0.457447	0	A|0.000;C|0.068;T|0.932	0.068	strong	.	NRAP	208	.	NM_001261463	exon26	c.A2897G	p.D966G	AAAGCATCTGGAT	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62293948	62293948	+	Silent	SNP	G	G	A	rs486903	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	232	217	1	0.995708	0.00460829	G|0.462;A|0.538	0.538	strong	AHNAK,NS,carcinoma,0,1	AHNAK	532	1	NM_001620	exon5	c.C7941T	p.S2647S	AGGCATGCTGAAC	.	PASS	Atlas-SNP
POLR3B	55703	hgsc.bcm.edu	37	12	106903321	106903321	+	Silent	SNP	T	T	C	rs13561	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	26	57	0	0.472727	0	T|0.734;C|0.266	0.266	strong	.	POLR3B	123	.	NM_018082	exon28	c.T3396C	p.N1132N	GTACAATGAATGA	.	PASS	Atlas-SNP
TCL1B	9623	hgsc.bcm.edu	37	14	96157187	96157187	+	Missense_Mutation	SNP	G	G	A	rs1064017	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	78	139	1	0.553191	0.00719424	G|0.658;A|0.342	0.342	strong	TCL1B,NS,malignant_melanoma,-2,3	TCL1B	30	3	NM_004918	exon2	c.G277A	p.G93R	TACCCCGGGAGGA	.	scavenged	Atlas-SNP
PFKP	5214	hgsc.bcm.edu	37	10	3172145	3172145	+	Silent	SNP	C	C	T	rs1052337	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	43	58	0	0.565789	0	C|0.856;G|0.000;T|0.144	0.144	strong	PFKP_ENST00000381075,colon,carcinoma,0,2	PFKP	182	2	NM_002627	exon17	c.C1818T	p.F606F	CATTTTCGAAGAG	.	PASS	Atlas-SNP
TAOK2	9344	hgsc.bcm.edu	37	16	29994922	29994922	+	Silent	SNP	C	C	T	rs3814883	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	46	71	0	0.5	0	C|0.622;T|0.378	0.378	strong	.	TAOK2	142	.	NM_004783	exon13	c.C1359T	p.S453S	CTCTTCCGCCCGC	.	PASS	Atlas-SNP
MFSD12	126321	hgsc.bcm.edu	37	19	3546264	3546264	+	Missense_Mutation	SNP	C	C	T	rs34878396	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	31	94	0	0.553571	0	C|0.996;T|0.004	0.004	strong	.	MFSD12	22	.	NM_001042680	exon7	c.G1183A	p.G395S	GGGGACCGATGAG	.	PASS	Atlas-SNP
AKR1A1	10327	hgsc.bcm.edu	37	1	46032543	46032543	+	Silent	SNP	G	G	A	rs41269113	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	15	36	0	0.454545	0	G|0.982;A|0.018	0.018	strong	.	AKR1A1	25	.	NM_001202413	exon5	c.G207A	p.A69A	CTAGGCGGTGCCT	.	PASS	Atlas-SNP
MROH2B	133558	hgsc.bcm.edu	37	5	41054934	41054934	+	Silent	SNP	A	A	G	rs325874	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	92	94	0	1	0	A|0.778;G|0.222	0.222	strong	.	.	.	.	NM_173489	exon11	c.T1042C	p.L348L	CCCTCAACCTGGG	.	PASS	Atlas-SNP
SHC2	25759	hgsc.bcm.edu	37	19	434718	434718	+	Silent	SNP	G	G	A	rs61749991	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	41	74	0	0.61194	0	G|0.934;A|0.066	0.066	strong	.	SHC2	47	.	NM_012435	exon8	c.C1101T	p.A367A	GTCGAGGGCCGTG	.	PASS	Atlas-SNP
KLF2	10365	hgsc.bcm.edu	37	19	16436775	16436775	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	5	50	0	0.128205	0	.	.	none	.	KLF2	10	.	NM_016270	exon2	c.G824A	p.S275N	CCTGCAGCTACGC	.	PASS	Atlas-SNP
EPHA8	2046	hgsc.bcm.edu	37	1	22915674	22915674	+	Silent	SNP	G	G	A	rs56044578	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	48	121	0	0.48	0	G|0.934;A|0.066	0.066	strong	.	EPHA8	221	.	NM_020526	exon5	c.G1290A	p.V430V	CGCTGTGGTCAAC	.	PASS	Atlas-SNP
ELSPBP1	64100	hgsc.bcm.edu	37	19	48525507	48525507	+	Missense_Mutation	SNP	G	G	A	rs2303690	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	100	214	1	0.487805	0.0046729	G|0.365;A|0.635	0.635	strong	ELSPBP1,NS,adenoma,0,1	ELSPBP1	29	1	NM_022142	exon6	c.G595A	p.E199K	ACTAACGAAGGAT	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388631	1388631	+	Missense_Mutation	SNP	C	C	G	rs200849975	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	88	240	1	0.661654	0.00416667	C|0.935;G|0.065	0.065	strong	CRIPAK,rectum,carcinoma,0,2	CRIPAK	185	2	NM_175918	exon1	c.C332G	p.P111R	CGTGCCCATGTGG	.	PASS	Atlas-SNP
TANC1	85461	hgsc.bcm.edu	37	2	160086654	160086654	+	Missense_Mutation	SNP	A	A	G	rs67270488	bycluster;byfrequency;byhapmap;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	89	102	0	1	0	A|0.509;CA|0.001	.	alt	.	TANC1	157	.	NM_033394	exon27	c.A4717G	p.T1573A	GCTGCCACTCCTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9048320	9048320	+	Missense_Mutation	SNP	C	C	T	rs56334501	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	65	155	0	0.492424	0	C|0.795;T|0.205	0.205	strong	.	MUC16	4315	.	NM_024690	exon5	c.G33311A	p.S11104N	CTGGAACTAGTGA	.	PASS	Atlas-SNP
CFTR	1080	hgsc.bcm.edu	37	7	117235055	117235055	+	Silent	SNP	T	T	G	rs1042077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	89	151	0	0.494444	0	G|0.425;N|0.000	0.425	strong	.	CFTR	171	.	NM_000492	exon15	c.T2562G	p.T854T	TATTACTGTCCAC	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170129528	170129528	+	Silent	SNP	G	G	A	rs830994	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	87	125	0	0.540373	0	G|0.358;A|0.642	0.642	strong	.	LRP2	751	.	NM_004525	exon15	c.C2025T	p.V675V	GCTGAGGACACAG	.	PASS	Atlas-SNP
RHBDL3	162494	hgsc.bcm.edu	37	17	30615883	30615883	+	Silent	SNP	C	C	T	rs150485822	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	232	110	210	0	0.474138	0	C|1.000;T|0.000	0.000	strong	.	RHBDL3	49	.	NM_138328	exon4	c.C367T	p.L123L	AAGGCCCTGCTGG	.	PASS	Atlas-SNP
LATS1	9113	hgsc.bcm.edu	37	6	150004779	150004779	+	Silent	SNP	A	A	G	rs3798761	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	68	161	0	0.42236	0	A|0.510;G|0.490	0.490	strong	.	LATS1	241	.	NM_001270519	exon4	c.T1446C	p.S482S	TGTAGCAGAAGGC	.	PASS	Atlas-SNP
GOLGA2	2801	hgsc.bcm.edu	37	9	131027963	131027963	+	Silent	SNP	A	A	G	rs12335848	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	55	100	0	0.514019	0	A|0.914;G|0.086	0.086	strong	GOLGA2,NS,carcinoma,0,1	GOLGA2	69	1	NM_004486	exon11	c.T753C	p.S251S	ATCTTCAGACTCT	.	PASS	Atlas-SNP
PLAC8L1	153770	hgsc.bcm.edu	37	5	145483844	145483844	+	Missense_Mutation	SNP	A	A	T	rs12187913	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	52	164	0	0.366197	0	A|0.797;T|0.203	0.203	strong	PLAC8L1,NS,carcinoma,0,1	PLAC8L1	17	1	NM_001029869	exon1	c.T31A	p.C11S	CAGGACACCTGAA	.	PASS	Atlas-SNP
CR1	1378	hgsc.bcm.edu	37	1	207760773	207760773	+	Missense_Mutation	SNP	C	C	T	rs3737002	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	293	147	283	0	0.501706	0	C|0.751;N|0.000	.	strong	CR1_ENST00000367049,NS,carcinoma,-1,2	CR1	354	2	NM_000651	exon34	c.C5573T	p.T1858M	GTCCTACGATCCC	.	PASS	Atlas-SNP
CYP11B2	1585	hgsc.bcm.edu	37	8	143994041	143994041	+	Missense_Mutation	SNP	C	C	T	rs4545	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	62	117	0	0.521008	0	C|0.914;T|0.086	0.086	strong	CYP11B2,NS,carcinoma,+2,1	CYP11B2	107	1	NM_000498	exon8	c.G1303A	p.G435S	TCCTGCCGGAGCC	.	PASS	Atlas-SNP
LAIR2	3904	hgsc.bcm.edu	37	19	55019261	55019261	+	Nonsense_Mutation	SNP	C	C	T	rs61737751	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	92	163	0	0.547619	0	C|0.965;T|0.035	0.035	strong	LAIR2,NS,malignant_melanoma,-1,1	LAIR2	30	1	NM_002288	exon3	c.C226T	p.R76X	GTGTTTCGACTTG	.	PASS	Atlas-SNP
OR5H1	26341	hgsc.bcm.edu	37	3	97852291	97852291	+	Silent	SNP	A	A	G	rs112819024	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	346	165	302	0	0.476879	0	A|0.993;G|0.007	0.007	strong	OR5H1,NS,carcinoma,+2,1	OR5H1	71	1	NM_001005338	exon1	c.A750G	p.L250L	CTCTTTATACTAT	.	PASS	Atlas-SNP
BMP8A	353500	hgsc.bcm.edu	37	1	39988084	39988084	+	Missense_Mutation	SNP	G	G	A	rs6525	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	29	276	0	0.247863	0	G|0.333;A|0.667	0.667	strong	BMP8A,brain,glioma,0,1	BMP8A	24	1	NM_181809	exon5	c.G878A	p.R293H	ACGTCCGCGGCTC	.	PASS	Atlas-SNP
FOXI1	2299	hgsc.bcm.edu	37	5	169533240	169533240	+	Silent	SNP	G	G	A	rs2277944	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	66	112	0	0.741573	0	G|0.676;A|0.324	0.324	strong	.	FOXI1	70	.	NM_012188	exon1	c.G279A	p.R93R	GCAGAGGCCGCTG	.	PASS	Atlas-SNP
RSPH10B	222967	hgsc.bcm.edu	37	7	5983070	5983070	+	Missense_Mutation	SNP	T	T	C	rs144996986	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1205	289	1070	2	0.239834	0.00186916	T|0.891;C|0.109	0.109	strong	.	RSPH10B	28	.	NM_173565	exon15	c.A1643G	p.Y548C	ATAGAGTAGAGCG	.	PASS	Atlas-SNP
CORIN	10699	hgsc.bcm.edu	37	4	47682174	47682174	+	Silent	SNP	A	A	G	rs10517195	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	48	90	0	0.461538	0	A|0.562;G|0.438	0.438	strong	.	CORIN	154	.	NM_006587	exon8	c.T1116C	p.S372S	CTCGTCAGACTTA	.	PASS	Atlas-SNP
SECISBP2L	9728	hgsc.bcm.edu	37	15	49325289	49325289	+	Silent	SNP	A	A	C	rs11638215	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	152	142	1	1	0.00704225	A|0.519;C|0.481	0.481	strong	.	SECISBP2L	118	.	NM_001193489	exon4	c.T537G	p.L179L	TTGTAAAAGCTGT	.	PASS	Atlas-SNP
ARF3	377	hgsc.bcm.edu	37	12	49333799	49333799	+	Silent	SNP	G	G	A	rs2228417	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	89	172	0	0.454082	0	G|0.954;A|0.046	0.046	strong	.	ARF3	11	.	NM_001659	exon3	c.C240T	p.H80H	GAAGTAGTGTCTC	.	PASS	Atlas-SNP
DSCAM	1826	hgsc.bcm.edu	37	21	41684166	41684166	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	3	127	0	0.0172414	0	.	.	none	DSCAM,right_upper_lobe,carcinoma,0,1	DSCAM	347	1	NM_001271534	exon9	c.G1904A	p.R635Q	ATTGGCCGGCCAT	.	scavenged	Atlas-SNP
PLCG1	5335	hgsc.bcm.edu	37	20	39792063	39792063	+	Missense_Mutation	SNP	A	A	G	rs2228246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	53	110	0	0.449153	0	A|0.883;G|0.117	0.117	strong	.	PLCG1	111	.	NM_182811	exon9	c.A835G	p.S279G	ATGCTCAGCTTCC	.	PASS	Atlas-SNP
TEAD1	7003	hgsc.bcm.edu	37	11	12903443	12903443	+	Silent	SNP	C	C	T	rs2304733	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	83	145	0	0.479769	0	C|0.574;T|0.426	0.426	strong	.	TEAD1	40	.	NM_021961	exon8	c.C513T	p.D171D	TCCCAGCGTCAAG	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	37	8	11188752	11188752	+	Missense_Mutation	SNP	G	G	A	rs77960126		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	77	150	0	0.553957	0	.	.	weak	.	.	.	.	NM_054028	exon1	c.G137A	p.G46D	TGCTGGGTGGGGG	.	PASS	Atlas-SNP
PITPNM2	57605	hgsc.bcm.edu	37	12	123471094	123471094	+	Silent	SNP	G	G	A	rs12811109	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	70	120	0	0.583333	0	G|0.860;A|0.140	0.140	strong	PITPNM2,colon,carcinoma,0,1	PITPNM2	105	1	NM_020845	exon24	c.C3615T	p.H1205H	GGCCGCGTGCACG	.	PASS	Atlas-SNP
CSAG1	158511	hgsc.bcm.edu	37	X	151908844	151908844	+	Missense_Mutation	SNP	A	A	T	rs36103895	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	646	641	1128	2	0.99226	0.00177305	.	.	alt	.	CSAG1	27	.	NM_153478	exon4	c.A83T	p.Y28F	GACTGTACAGAGA	.	PASS	Atlas-SNP
SH3BP1	23616	hgsc.bcm.edu	37	22	38051493	38051493	+	Silent	SNP	G	G	T	rs117382629	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	33	58	0	0.568965	0	G|0.987;T|0.013	0.013	strong	.	SH3BP1	41	.	NM_018957	exon18	c.G1908T	p.R636R	AAGCCGGCGTTCA	.	PASS	Atlas-SNP
SLC22A4	6583	hgsc.bcm.edu	37	5	131671662	131671662	+	Silent	SNP	C	C	G	rs12777	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	146	184	1	0.672811	0.00543478	C|0.971;G|0.029	0.029	strong	.	SLC22A4	45	.	NM_003059	exon8	c.C1413G	p.G471G	AGTGGGCAGCATC	.	PASS	Atlas-SNP
PLXNA3	55558	hgsc.bcm.edu	37	X	153695908	153695908	+	Silent	SNP	G	G	T	rs60361517	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	102	164	0	0.971429	0	G|0.810;T|0.190	0.190	strong	.	PLXNA3	156	.	NM_017514	exon20	c.G3462T	p.A1154A	TCCCGCGGCAGCC	.	PASS	Atlas-SNP
OR10R2	343406	hgsc.bcm.edu	37	1	158450238	158450238	+	Missense_Mutation	SNP	G	G	A	rs3820678	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	218	251	1	1	0.00398406	G|0.816;A|0.184	0.184	strong	OR10R2,colon,carcinoma,-1,1	OR10R2	81	1	NM_001004472	exon1	c.G571A	p.A191T	TGTAGCGCCAACA	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51947237	51947237	+	Silent	SNP	G	G	A	rs9474143	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	49	89	0	0.49	0	G|0.682;A|0.318	0.318	strong	PKHD1,NS,carcinoma,0,1	PKHD1	927	1	NM_170724	exon4	c.C234T	p.D78D	AAAGACGTCACAG	.	PASS	Atlas-SNP
TRPC6	7225	hgsc.bcm.edu	37	11	101342958	101342958	+	Silent	SNP	G	G	A	rs61743044	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	37	57	0	0.587302	0	G|0.956;A|0.044	0.044	strong	.	TRPC6	132	.	NM_004621	exon8	c.C2115T	p.Y705Y	AAGAACGTAACCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195489009	195489009	+	Missense_Mutation	SNP	C	C	A	rs2246901	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	79	52	0	0.9875	0	C|0.374;A|0.626	0.626	strong	.	MUC4	1505	.	NM_018406	exon14	c.G14461T	p.A4821S	CGGAGGCGTGGAG	.	PASS	Atlas-SNP
ADAMTS8	11095	hgsc.bcm.edu	37	11	130275749	130275749	+	Missense_Mutation	SNP	T	T	C	rs11222085	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	46	95	0	0.414414	0	T|0.886;C|0.114	0.114	strong	.	ADAMTS8	172	.	NM_007037	exon9	c.A2374G	p.T792A	GGACTGTCAGGAG	.	PASS	Atlas-SNP
ARSB	411	hgsc.bcm.edu	37	5	78181423	78181423	+	Missense_Mutation	SNP	C	C	T	rs1071598	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	26	64	0	0.45614	0	C|0.884;T|0.116	0.116	strong	.	ARSB	47	.	NM_198709	exon6	c.G1126A	p.V376M	TCCACACGTCGAA	.	PASS	Atlas-SNP
SIN3B	23309	hgsc.bcm.edu	37	19	16976289	16976289	+	Silent	SNP	T	T	C	rs2303091	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	69	145	0	0.479167	0	T|0.859;C|0.141	0.141	strong	.	SIN3B	90	.	NM_015260	exon12	c.T1548C	p.S516S	GCTATCTCGGATG	.	PASS	Atlas-SNP
NPFFR1	64106	hgsc.bcm.edu	37	10	72014779	72014779	+	Silent	SNP	G	G	A	rs1999624	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	9	12	0	0.5625	0	G|0.943;A|0.057	0.057	strong	.	NPFFR1	21	.	NM_022146	exon4	c.C1227T	p.H409H	CAAGCCGTGGTGA	.	PASS	Atlas-SNP
SYTL5	94122	hgsc.bcm.edu	37	X	37948832	37948832	+	Missense_Mutation	SNP	A	A	G	rs4827331	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	155	270	0	0.99359	0	A|0.858;0|0.015	.	strong	.	SYTL5	72	.	NM_001163334	exon6	c.A823G	p.I275V	TCAGTCATCAGTA	.	PASS	Atlas-SNP
GRHPR	9380	hgsc.bcm.edu	37	9	37436755	37436755	+	Silent	SNP	G	G	A	rs76299266	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	37	80	0	0.406593	0	G|0.992;A|0.008	0.008	strong	.	GRHPR	35	.	NM_012203	exon9	c.G963A	p.P321P	GGAGCCGATGCCT	.	PASS	Atlas-SNP
PRUNE2	158471	hgsc.bcm.edu	37	9	79325558	79325558	+	Silent	SNP	G	G	C	rs600859	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	55	102	0	0.495495	0	A|0.001;C|0.522;G|0.477	0.522	strong	.	PRUNE2	331	.	NM_015225	exon8	c.C1632G	p.T544T	CATGTTGGTTCCC	.	PASS	Atlas-SNP
LILRA4	23547	hgsc.bcm.edu	37	19	54848684	54848684	+	Silent	SNP	G	G	A	rs8105624	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	85	188	0	0.57047	0	G|0.821;A|0.179	0.179	strong	.	LILRA4	91	.	NM_012276	exon5	c.C939T	p.D313D	CAGGATGTCCAGG	.	PASS	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	37	9	732536	732536	+	Missense_Mutation	SNP	T	T	C	rs34832656	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	71	136	0	0.633929	0	T|0.838;C|0.162	0.162	strong	.	KANK1	231	.	NM_001256876	exon10	c.T3164C	p.I1055T	TTAATATTGAAGG	.	PASS	Atlas-SNP
ZBTB40	9923	hgsc.bcm.edu	37	1	22852715	22852715	+	Silent	SNP	G	G	C	rs881646	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	32	88	0	0.405063	0	G|0.692;C|0.308	0.308	strong	.	ZBTB40	87	.	NM_001083621	exon19	c.G3546C	p.P1182P	AGAGCCGGTGGCC	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28419746	28419746	+	Silent	SNP	G	G	A	rs139335991	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	516	46	636	0	0.0891473	0	G|0.942;A|0.058	0.058	strong	.	HERC2	501	.	NM_004667	exon65	c.C9852T	p.N3284N	GTGGTCGTTGTCA	.	PASS	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	117696	117696	+	Missense_Mutation	SNP	G	G	A	rs9406415	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	151	260	0	0.634454	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
TMEM132E	124842	hgsc.bcm.edu	37	17	32962050	32962050	+	Missense_Mutation	SNP	C	C	T	rs75594429	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	44	65	0	0.52381	0	C|0.979;T|0.021	0.021	strong	.	TMEM132E	122	.	NM_207313	exon8	c.C1651T	p.H551Y	GTGGCACACATGG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179582738	179582738	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	80	120	0	0.526316	0	.	.	none	.	TTN	18412	.	NM_001267550	exon86	c.G24995A	p.G8332E	TACTCTCCCACAT	.	PASS	Atlas-SNP
MAP4K3	8491	hgsc.bcm.edu	37	2	39583446	39583446	+	Silent	SNP	A	A	G	rs8545	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	237	205	1	1	0.00487805	A|0.276;G|0.724	0.724	strong	.	MAP4K3	109	.	NM_001270425	exon3	c.T189C	p.I63I	CATCATAATAATT	.	PASS	Atlas-SNP
PGPEP1L	145814	hgsc.bcm.edu	37	15	99511793	99511793	+	Missense_Mutation	SNP	C	C	G	rs1521484	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	111	232	1	0.488987	0.00431034	C|0.537;G|0.463	0.463	strong	.	PGPEP1L	26	.	NM_001102612	exon5	c.G505C	p.E169Q	GCATTTCCTGGAT	.	PASS	Atlas-SNP
TMEM8A	58986	hgsc.bcm.edu	37	16	424277	424277	+	Missense_Mutation	SNP	G	G	A	rs3743887	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	33	66	0	0.55	0	G|0.897;A|0.103	0.103	strong	.	TMEM8A	49	.	NM_021259	exon10	c.C1699T	p.R567W	ATCGCCGCACTGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	26	47	0	0.541667	0	G|0.756;T|0.003	.	strong	.	DLG5	154	.	NM_004747	exon17	c.C3528T	p.G1176G	AACAGTGCCTAGA	.	PASS	Atlas-SNP
TBX21	30009	hgsc.bcm.edu	37	17	45811210	45811210	+	Silent	SNP	A	A	G	rs2074190	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	28	52	0	0.474576	0	A|0.750;G|0.250	0.250	strong	TBX21,NS,carcinoma,0,1	TBX21	50	1	NM_013351	exon1	c.A390G	p.G130G	CGCGGGACTGGAG	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	504830	504830	+	Silent	SNP	C	C	G	rs7246543	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	71	170	0	0.348039	0	C|0.687;G|0.312;T|0.001	0.312	strong	.	MADCAM1	29	.	NM_130760	exon5	c.C1014G	p.T338T	GCCCACCTATCAC	.	PASS	Atlas-SNP
HLA-DQA2	3118	hgsc.bcm.edu	37	6	32714143	32714143	+	Missense_Mutation	SNP	G	G	A	rs2071800	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	719	278	535	2	0.386648	0.00373832	G|0.944;A|0.056	0.056	strong	.	HLA-DQA2	27	.	NM_020056	exon4	c.G740A	p.G247D	CAGTTGGTGCTTC	.	PASS	Atlas-SNP
GLP1R	2740	hgsc.bcm.edu	37	6	39040654	39040654	+	Silent	SNP	A	A	C	rs2235868	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	176	182	0	0.99435	0	A|0.542;C|0.458	0.458	strong	GLP1R,NS,carcinoma,0,1	GLP1R	64	1	NM_002062	exon6	c.A526C	p.R176R	TGCACCAGGAACT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507251	195507251	+	Missense_Mutation	SNP	G	G	T	rs201456607	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	317	137	57	15	0.432177	0.263158	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C11200A	p.P3734T	AGGAAGGGCTGGT	.	scavenged	Atlas-SNP
SAGE1	55511	hgsc.bcm.edu	37	X	134994054	134994054	+	Silent	SNP	G	G	A	rs4829584	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	58	154	0	1	0	0|0.004;A|0.130	0.130	strong	.	SAGE1	160	.	NM_018666	exon18	c.G2463A	p.K821K	GGCAAAGAAAATT	.	PASS	Atlas-SNP
FOXJ3	22887	hgsc.bcm.edu	37	1	42657196	42657196	+	Missense_Mutation	SNP	T	T	G	rs1139978	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	462	177	562	2	0.383117	0.00355872	T|0.907;G|0.093	0.093	strong	.	FOXJ3	59	.	NM_001198851	exon11	c.A1129C	p.T377P	GCTGTGTGTGCAT	.	PASS	Atlas-SNP
EPHA8	2046	hgsc.bcm.edu	37	1	22915858	22915858	+	Missense_Mutation	SNP	C	C	T	rs76452513	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	18	10	23	0	0.555556	0	C|0.929;T|0.071	0.071	strong	EPHA8_ENST00000374644,NS,carcinoma,0,1	EPHA8	221	1	NM_001006943	exon5	c.C1474T	p.L492F	GAGGCTCTTCATT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	222	221	191	0	0.995495	0	C|0.456;T|0.544	0.544	strong	.	OR8S1	47	.	NM_001005203	exon1	c.C382T	p.R128C	ATCTGCCGCCCAC	.	PASS	Atlas-SNP
SCRIB	23513	hgsc.bcm.edu	37	8	144875242	144875242	+	Silent	SNP	C	C	T	rs11784217	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	39	87	0	0.458824	0	C|0.983;T|0.017	0.017	strong	.	SCRIB	192	.	NM_015356	exon29	c.G3921A	p.P1307P	AGAAGGCGGGGAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	60	75	0	0.983607	0	C|0.228;T|0.772	0.772	strong	.	MGA	264	.	NM_001080541	exon12	c.C3888T	p.D1296D	CTGTGACTTGGAG	.	PASS	Atlas-SNP
TTC21A	199223	hgsc.bcm.edu	37	3	39161464	39161464	+	Missense_Mutation	SNP	G	G	A	rs1274971	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	88	185	0	0.578947	0	G|0.552;A|0.448	0.448	strong	.	TTC21A	96	.	NM_145755	exon8	c.G877A	p.E293K	GAACCCGAAAATC	.	PASS	Atlas-SNP
SPG7	6687	hgsc.bcm.edu	37	16	89620328	89620328	+	Missense_Mutation	SNP	G	G	A	rs12960	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	35	103	0	0.460526	0	G|0.871;A|0.129	0.129	strong	.	SPG7	75	.	NM_003119	exon15	c.G2063A	p.R688Q	TCGGGCGGCGCCC	.	PASS	Atlas-SNP
ANKRD30B	374860	hgsc.bcm.edu	37	18	14780019	14780019	+	Missense_Mutation	SNP	G	G	T	rs72873710	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	19	95	0	0.193878	0	.	.	strong	ANKRD30B_ENST00000358984,caecum,carcinoma,0,4	ANKRD30B	237	4	NM_001145029	exon11	c.G1481T	p.G494V	ATTCTGGGGTATT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238931	31238931	+	Silent	SNP	G	G	A	rs697743	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	361	98	411	0	0.271468	0	G|0.777;C|0.108;A|0.115	0.115	strong	HLA-C_ENST00000383329,NS,carcinoma,0,4	HLA-C	92	4	NM_002117	exon3	c.C538T	p.L180L	CTCTCAGCTGCTC	.	PASS	Atlas-SNP
SENP6	26054	hgsc.bcm.edu	37	6	76376552	76376552	+	Silent	SNP	G	G	A	rs17414687	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	37	97	0	0.493333	0	G|0.773;A|0.227	0.227	strong	SENP6_ENST00000447266,NS,carcinoma,0,2	SENP6	189	2	NM_015571	exon10	c.G1119A	p.A373A	AGCAGCGCTAAAT	.	PASS	Atlas-SNP
DDX60L	91351	hgsc.bcm.edu	37	4	169327191	169327191	+	Silent	SNP	C	C	T	rs3762856	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	116	138	0	1	0	C|0.674;T|0.326	0.326	strong	.	DDX60L	116	.	NM_001012967	exon24	c.G3123A	p.K1041K	GACTATCTTATTC	.	PASS	Atlas-SNP
URGCP	55665	hgsc.bcm.edu	37	7	43917013	43917013	+	Silent	SNP	G	G	A	rs2232105	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	41	65	0	0.539474	0	G|0.529;A|0.471	0.471	strong	.	URGCP	170	.	NM_001077663	exon6	c.C2049T	p.H683H	TCGGACGTGCAGC	.	PASS	Atlas-SNP
GRIN3B	116444	hgsc.bcm.edu	37	19	1004724	1004724	+	Silent	SNP	A	A	G	rs11880849	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	13	18	0	0.590909	0	A|0.692;G|0.308	0.308	strong	.	GRIN3B	46	.	NM_138690	exon3	c.A1224G	p.P408P	GCCCCCACAGGGT	.	PASS	Atlas-SNP
CCR8	1237	hgsc.bcm.edu	37	3	39373902	39373902	+	Missense_Mutation	SNP	C	C	G	rs2853699	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	130	284	0	0.601852	0	C|0.791;G|0.209	0.209	strong	.	CCR8	34	.	NM_005201	exon2	c.C80G	p.A27G	GTGATGCGGAACT	.	PASS	Atlas-SNP
EFTUD1	79631	hgsc.bcm.edu	37	15	82444663	82444663	+	Missense_Mutation	SNP	T	T	C	rs2292071	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	49	102	0	0.510417	0	T|0.844;C|0.156	0.156	strong	.	EFTUD1	74	.	NM_024580	exon18	c.A2132G	p.K711R	TGCTGTTTGCCTA	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42872779	42872779	+	Silent	SNP	C	C	T	rs2273951	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	67	95	0	0.496296	0	C|0.887;T|0.113	0.113	strong	.	AKAP11	146	.	NM_016248	exon7	c.C462T	p.Y154Y	AAGGTACACCTTG	.	PASS	Atlas-SNP
RNMTL1	55178	hgsc.bcm.edu	37	17	685752	685752	+	Missense_Mutation	SNP	G	G	A	rs2249542	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	30	84	0	0.461538	0	G|0.824;A|0.175	0.175	strong	.	RNMTL1	25	.	NM_018146	exon1	c.G134A	p.G45E	CTTCCGGAGAGGT	.	PASS	Atlas-SNP
IGF2BP3	10643	hgsc.bcm.edu	37	7	23357321	23357321	+	Silent	SNP	C	C	T	rs156414	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	92	186	0	0.462312	0	T|0.301;G|0.001;C|0.698;N|0.000	0.301	strong	IGF2BP3,NS,carcinoma,0,1	IGF2BP3	71	1	NM_006547	exon12	c.G1332A	p.A444A	TGCTTCCGCTGGA	.	PASS	Atlas-SNP
TAS1R1	80835	hgsc.bcm.edu	37	1	6635306	6635306	+	Missense_Mutation	SNP	G	G	A	rs34160967	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	83	136	0	0.576389	0	G|0.871;A|0.129	0.129	strong	TAS1R1,caecum,carcinoma,0,1	TAS1R1	76	1	NM_138697	exon3	c.G1114A	p.A372T	TTCATGGCACACA	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	37	6	26463575	26463575	+	Missense_Mutation	SNP	G	G	T	rs13195402	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	66	124	0	0.455172	0	G|0.952;T|0.048	0.048	strong	.	BTN2A1	118	.	NM_001197234	exon4	c.G534T	p.W178C	AGTGTGGAGGGAC	.	PASS	Atlas-SNP
FAR1	84188	hgsc.bcm.edu	37	11	13734555	13734555	+	Silent	SNP	T	T	C	rs12798176	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	77	158	0	0.435028	0	T|0.967;C|0.033	0.033	strong	.	FAR1	40	.	NM_032228	exon8	c.T930C	p.T310T	CAGCACTAATCCT	.	PASS	Atlas-SNP
EPDR1	54749	hgsc.bcm.edu	37	7	37988589	37988589	+	Silent	SNP	C	C	T	rs2044831	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	88	0	1	0	C|0.322;T|0.678	0.678	strong	EPDR1,caecum,carcinoma,0,1	EPDR1	48	1	NM_017549	exon2	c.C417T	p.I139I	CTCCATCGGGGGG	.	PASS	Atlas-SNP
ENTHD2	146705	hgsc.bcm.edu	37	17	79205736	79205736	+	Silent	SNP	G	G	A	rs11655759	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	70	178	0	0.426829	0	G|0.729;A|0.271	0.271	strong	.	.	.	.	NM_144679	exon8	c.C612T	p.S204S	CAGGTCGCTGTTC	.	PASS	Atlas-SNP
SMG6	23293	hgsc.bcm.edu	37	17	2203453	2203453	+	Silent	SNP	A	A	G	rs216193	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	51	96	0	0.520408	0	A|0.439;G|0.561	0.561	strong	.	SMG6	97	.	NM_017575	exon2	c.T594C	p.A198A	TATCTCAGCCCTG	.	PASS	Atlas-SNP
PLEK	5341	hgsc.bcm.edu	37	2	68607984	68607984	+	Missense_Mutation	SNP	G	G	T	rs147263237	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	24	94	0	0.311688	0	G|1.000;T|0.000	0.000	weak	PLEK,NS,carcinoma,0,2	PLEK	64	2	NM_002664	exon3	c.G328T	p.A110S	AAATTTGCCAGGA	.	PASS	Atlas-SNP
FLNC	2318	hgsc.bcm.edu	37	7	128477472	128477472	+	Silent	SNP	T	T	C	rs2291560	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	21	56	0	0.375	0	T|0.879;C|0.121	0.121	strong	.	FLNC	339	.	NM_001127487	exon4	c.T720C	p.I240I	GGAGATTGTGGAC	.	PASS	Atlas-SNP
PHIP	55023	hgsc.bcm.edu	37	6	79657391	79657391	+	Silent	SNP	G	G	A	rs1984195	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	34	105	0	0.333333	0	G|0.542;A|0.458	0.458	strong	.	PHIP	177	.	NM_017934	exon36	c.C4155T	p.V1385V	AAGTCTGACATCT	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150945862	150945862	+	Silent	SNP	A	A	G	rs3734057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	53	169	0	0.278947	0	A|0.526;G|0.474	0.474	strong	.	FAT2	465	.	NM_001447	exon1	c.T2631C	p.V877V	TCCTGTAACAACC	.	PASS	Atlas-SNP
AGO1	26523	hgsc.bcm.edu	37	1	36367665	36367665	+	Silent	SNP	C	C	T	rs61751003	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	75	110	0	0.635593	0	C|0.998;T|0.002	0.002	strong	.	.	.	.	NM_012199	exon10	c.C1257T	p.G419G	GTACGGCGGCCGG	.	PASS	Atlas-SNP
CEP128	145508	hgsc.bcm.edu	37	14	80971261	80971261	+	Missense_Mutation	SNP	C	C	T	rs61744330	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	25	45	0	0.446429	0	C|0.923;T|0.077	0.077	strong	.	CEP128	146	.	NM_152446	exon23	c.G3175A	p.V1059M	AGTTCACGTATGA	.	PASS	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	37	7	101837149	101837149	+	Silent	SNP	G	G	A	rs11540899	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	40	74	0	0.487805	0	G|0.655;A|0.345	0.345	strong	CUX1_ENST00000292538,rectum,carcinoma,0,2	CUX1	253	2	NM_001202543	exon13	c.G1137A	p.P379P	TGCACCGTCCGAG	.	PASS	Atlas-SNP
WDR18	57418	hgsc.bcm.edu	37	19	990238	990238	+	Silent	SNP	C	C	T	rs117300378	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	7	60	0	0.259259	0	C|0.961;T|0.039	0.039	strong	.	WDR18	20	.	NM_024100	exon4	c.C471T	p.D157D	GGCCGACCCCTCC	.	PASS	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	37	10	123903133	123903133	+	Missense_Mutation	SNP	G	G	A	rs12765679	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	41	65	0	0.493976	0	G|0.854;A|0.146	0.146	strong	.	TACC2	271	.	NM_206862	exon7	c.G5746A	p.E1916K	GCTGCAGAACACA	.	PASS	Atlas-SNP
SLC7A13	157724	hgsc.bcm.edu	37	8	87229739	87229739	+	Missense_Mutation	SNP	C	C	T	rs4419794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	47	125	0	0.391667	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
CCDC33	80125	hgsc.bcm.edu	37	15	74622549	74622549	+	Missense_Mutation	SNP	G	G	T	rs2277604	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	88	177	0	0.458333	0	G|0.958;T|0.042	0.042	strong	.	CCDC33	160	.	NM_025055	exon12	c.G1310T	p.R437L	ACCGGCGGGCCAT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195510149	195510149	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	375	33	216	9	0.088	0.0416667	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C8302T	p.P2768S	GAAGAGGGGTGGC	.	scavenged	Atlas-SNP
ILDR2	387597	hgsc.bcm.edu	37	1	166905927	166905927	+	Missense_Mutation	SNP	C	C	T	rs33958744	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	403	192	299	0	0.476427	0	C|0.857;T|0.143	0.143	strong	.	ILDR2	79	.	NM_199351	exon5	c.G604A	p.V202I	CCAGGACGAAGAA	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152192397	152192397	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	299	5	262	0	0.0167224	0	.	.	none	HRNR,NS,carcinoma,+2,1	HRNR	403	1	NM_001009931	exon3	c.A1708G	p.S570G	CACGGCTTGAAGA	.	scavenged	Atlas-SNP
ARSE	415	hgsc.bcm.edu	37	X	2852915	2852915	+	Silent	SNP	C	C	T	rs11551861		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	119	370	0	0.97541	0	.	.	weak	.	ARSE	43	.	NM_000047	exon11	c.G1728A	p.P576P	GGGGAACGGGCCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	30	90	0	0.410959	0	G|0.764;C|0.236	0.236	strong	.	EIF2AK3	160	.	NM_004836	exon2	c.C407G	p.S136C	ACCAAGGAACCGG	.	PASS	Atlas-SNP
ZNF529	57711	hgsc.bcm.edu	37	19	37038584	37038584	+	Silent	SNP	T	T	C	rs183728423	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	86	162	0	0.472527	0	T|0.998;C|0.002	0.002	strong	.	ZNF529	82	.	NM_001145649	exon6	c.A876G	p.R292R	ATGCACTCTAAAG	.	PASS	Atlas-SNP
SLC12A7	10723	hgsc.bcm.edu	37	5	1057615	1057615	+	Silent	SNP	A	A	G	rs2241606	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	57	74	0	0.495652	0	A|0.485;G|0.515	0.515	strong	SLC12A7,NS,carcinoma,-1,1	SLC12A7	97	1	NM_006598	exon22	c.T2997C	p.S999S	GAAACCAGATAGG	.	PASS	Atlas-SNP
OAT	4942	hgsc.bcm.edu	37	10	126089434	126089434	+	Silent	SNP	G	G	A	rs11461	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	86	153	0	0.462366	0	G|0.648;A|0.352	0.352	strong	.	OAT	25	.	NM_000274	exon9	c.C1134T	p.N378N	AATAGCGTTTAAT	.	PASS	Atlas-SNP
ANKLE2	23141	hgsc.bcm.edu	37	12	133331364	133331364	+	Silent	SNP	G	G	A	rs34152718	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	28	89	0	0.4	0	G|0.957;A|0.043	0.043	strong	.	ANKLE2	76	.	NM_015114	exon2	c.C537T	p.P179P	ACTAGGGGGCACC	.	PASS	Atlas-SNP
DNAJC18	202052	hgsc.bcm.edu	37	5	138773090	138773090	+	Silent	SNP	A	A	G	rs10900864	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	336	228	319	0	0.678571	0	A|0.531;G|0.469	0.469	strong	.	DNAJC18	30	.	NM_152686	exon2	c.T198C	p.Y66Y	CTCACTATACGTG	.	PASS	Atlas-SNP
FGFR2	2263	hgsc.bcm.edu	37	10	123239112	123239112	+	Silent	SNP	G	G	A	rs1047057	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	47	86	0	0.522222	0	G|0.609;A|0.391	0.391	strong	FGFR2_ENST00000357555,NS,carcinoma,0,1	FGFR2	758	1	NM_001144915	exon17	c.C2107T	p.L703L	CAGCCAGTACGCA	.	PASS	Atlas-SNP
VAT1	10493	hgsc.bcm.edu	37	17	41174025	41174025	+	Silent	SNP	A	A	C	rs2070835	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	32	77	0	0.477612	0	A|0.711;C|0.289	0.289	strong	VAT1,NS,carcinoma,0,1	VAT1	19	1	NM_006373	exon1	c.T315G	p.P105P	AGGCAGAGGCGGG	.	PASS	Atlas-SNP
CDH18	1016	hgsc.bcm.edu	37	5	19591174	19591174	+	Silent	SNP	A	A	G	rs17285716	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	55	112	0	0.410448	0	A|0.879;G|0.121	0.121	strong	CDH18_ENST00000507958,NS,adenoma,0,4	CDH18	561	4	NM_001167667	exon7	c.T991C	p.L331L	TCTTTAAAGAAAG	.	PASS	Atlas-SNP
UBE2O	63893	hgsc.bcm.edu	37	17	74387455	74387455	+	Missense_Mutation	SNP	C	C	T	rs34070229	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	48	69	0	0.448598	0	C|0.991;T|0.009	0.009	strong	.	UBE2O	207	.	NM_022066	exon18	c.G3448A	p.A1150T	GCAGGGCATGGGT	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129906674	129906674	+	Missense_Mutation	SNP	T	T	C	rs41300566	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	463	246	475	1	0.531317	0.00210526	T|0.937;C|0.063	0.063	strong	.	MKI67	363	.	NM_002417	exon13	c.A3430G	p.K1144E	ATTGCTTTGTGCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	57	99	0	0.491379	0	C|0.924;G|0.076	0.076	strong	.	PLCE1	543	.	NM_016341	exon29	c.C6324G	p.V2108V	GATTGTCTTAAAA	.	PASS	Atlas-SNP
KIF4B	285643	hgsc.bcm.edu	37	5	154396505	154396505	+	Missense_Mutation	SNP	G	G	A	rs60928118	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	363	222	348	0	0.61157	0	G|0.858;A|0.142	0.142	strong	.	KIF4B	307	.	NM_001099293	exon1	c.G3086A	p.R1029H	CTTCTCGTGTTAA	.	PASS	Atlas-SNP
ITM2C	81618	hgsc.bcm.edu	37	2	231742138	231742138	+	Silent	SNP	G	G	A	rs34910213	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	84	164	0	0.464088	0	G|0.988;A|0.012	0.012	strong	.	ITM2C	17	.	NM_030926	exon5	c.G585A	p.T195T	GCAGACGTACATC	.	PASS	Atlas-SNP
MFRP	83552	hgsc.bcm.edu	37	11	119216231	119216231	+	Silent	SNP	A	A	G	rs2510143	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	56	59	0	1	0	A|0.088;G|0.912	0.912	strong	MFRP,NS,carcinoma,-1,1	MFRP	63	1	NM_031433	exon5	c.T540C	p.H180H	TATTGCATGGTCT	.	PASS	Atlas-SNP
DACT2	168002	hgsc.bcm.edu	37	6	168709147	168709147	+	Silent	SNP	G	G	A	rs41266321	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	39	104	0	0.414894	0	G|0.957;A|0.043	0.043	strong	.	DACT2	46	.	NM_214462	exon4	c.C1290T	p.S430S	GACACAGCTGTTT	.	PASS	Atlas-SNP
TREML4	285852	hgsc.bcm.edu	37	6	41196727	41196727	+	Silent	SNP	C	C	T	rs2101269	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	164	164	0	0.993939	0	C|0.306;T|0.694	0.694	strong	.	TREML4	25	.	NM_198153	exon2	c.C339T	p.N113N	CTACAACGCTTCC	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103397583	103397583	+	Missense_Mutation	SNP	C	C	G	rs9582626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	93	254	0	0.41704	0	C|0.319;G|0.681	0.681	strong	.	.	.	.	NM_001146197	exon4	c.G5464C	p.A1822P	ACAATGCCTCCTG	.	PASS	Atlas-SNP
ZCCHC14	23174	hgsc.bcm.edu	37	16	87445363	87445363	+	Silent	SNP	G	G	A	rs1050846	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	22	48	0	0.52381	0	G|0.719;A|0.281	0.281	strong	.	ZCCHC14	87	.	NM_015144	exon12	c.C2553T	p.H851H	AGGGGCGTGCACG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179498042	179498042	+	Missense_Mutation	SNP	T	T	C	rs6723526	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	290	143	280	0	0.493103	0	T|0.944;C|0.056	0.056	strong	.	TTN	18412	.	NM_001267550	exon233	c.A42958G	p.K14320E	CCACTTTTATTAG	.	PASS	Atlas-SNP
TMEM132C	92293	hgsc.bcm.edu	37	12	129181810	129181810	+	Silent	SNP	A	A	G	rs885546	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	62	66	0	1	0	A|0.186;G|0.814	0.814	strong	.	TMEM132C	142	.	NM_001136103	exon8	c.A1971G	p.T657T	GAAGACAATAACC	.	PASS	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141335498	141335498	+	Missense_Mutation	SNP	C	C	T	rs164515	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	55	85	0	0.597826	0	C|0.796;T|0.204	0.204	strong	PCDH12,colon,carcinoma,+1,1	PCDH12	133	1	NM_016580	exon1	c.G1919A	p.S640N	TTTCCACTGCGGA	.	PASS	Atlas-SNP
VPS41	27072	hgsc.bcm.edu	37	7	38829465	38829465	+	Silent	SNP	C	C	T	rs1001476	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	61	160	0	0.42069	0	T|0.138;G|0.005	0.138	strong	.	VPS41	102	.	NM_014396	exon10	c.G720A	p.V240V	TGAGCACACCTGG	.	PASS	Atlas-SNP
CYLD	1540	hgsc.bcm.edu	37	16	50810149	50810149	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	13	97	0	0.125	0	.	.	none	.	CYLD	150	.	NM_015247	exon8	c.G982A	p.D328N	GTTGGGGACAAAG	.	PASS	Atlas-SNP
ITM2C	81618	hgsc.bcm.edu	37	2	231738263	231738263	+	Silent	SNP	C	C	T	rs2289234	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	169	172	0	1	0	C|0.546;T|0.454	0.454	strong	.	ITM2C	17	.	NM_030926	exon2	c.C252T	p.F84F	CTTCTTCCTTGCG	.	PASS	Atlas-SNP
PDHX	8050	hgsc.bcm.edu	37	11	34991727	34991727	+	Silent	SNP	T	T	C	rs497582	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	88	75	0	0.988764	0	T|0.407;C|0.593	0.593	strong	.	PDHX	40	.	NM_003477	exon7	c.T858C	p.V286V	AAGAGTTATTGCC	.	PASS	Atlas-SNP
AQPEP	0	hgsc.bcm.edu	37	5	115298378	115298378	+	Silent	SNP	C	C	T	rs10062297	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	19	19	51	0	1	0	C|0.218;T|0.782	0.782	strong	FLJ90650,NS,carcinoma,0,1	.	.	1	NM_173800	exon1	c.C64T	p.L22L	GCTGGGCTGGTAG	.	PASS	Atlas-SNP
EIF2A	83939	hgsc.bcm.edu	37	3	150285520	150285520	+	Silent	SNP	T	T	C	rs2293151	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268	119	204	0	0.44403	0	T|0.885;C|0.115	0.115	strong	.	EIF2A	59	.	NM_032025	exon7	c.T516C	p.D172D	TAATGATTTTGTA	.	PASS	Atlas-SNP
OPN4	94233	hgsc.bcm.edu	37	10	88414570	88414570	+	Silent	SNP	G	G	A	rs11202106	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	59	92	1	0.551402	0.0108696	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	.	scavenged	Atlas-SNP
TOX4	9878	hgsc.bcm.edu	37	14	21960816	21960816	+	Silent	SNP	T	T	C	rs1060722	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	57	112	0	0.518182	0	T|0.514;C|0.486	0.486	strong	.	TOX4	50	.	NM_014828	exon7	c.T1041C	p.L347L	CACCCTTTCATCC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9066874	9066874	+	Missense_Mutation	SNP	G	G	T	rs12609150	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	418	212	440	0	0.507177	0	G|0.786;T|0.214	0.214	strong	.	MUC16	4315	.	NM_024690	exon3	c.C20572A	p.P6858T	AATTTGGAGGTGA	.	PASS	Atlas-SNP
FSIP1	161835	hgsc.bcm.edu	37	15	39910052	39910052	+	Missense_Mutation	SNP	C	C	G	rs16969386	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	66	157	0	0.428571	0	C|0.858;G|0.142	0.142	strong	FSIP1,NS,carcinoma,0,1	FSIP1	53	1	NM_152597	exon11	c.G1583C	p.G528A	CCAATGCCAAGAG	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2836184	2836184	+	Missense_Mutation	SNP	C	C	T	rs73632976	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	68	186	0	0.435897	0	C|0.915;T|0.085	0.085	strong	.	ARSD	47	.	NM_001669	exon5	c.G524A	p.G175D	GGCATGCCGTAGA	.	PASS	Atlas-SNP
ZNF774	342132	hgsc.bcm.edu	37	15	90903502	90903502	+	Missense_Mutation	SNP	G	G	A	rs11854320	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	40	96	1	0.526316	0.0104167	G|0.879;A|0.121	0.121	strong	ZNF774,NS,carcinoma,0,1	ZNF774	35	1	NM_001004309	exon4	c.G439A	p.V147I	GGATATGTAGGAG	.	scavenged	Atlas-SNP
RAB11FIP1	80223	hgsc.bcm.edu	37	8	37730368	37730368	+	Missense_Mutation	SNP	G	G	A	rs12541651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	79	171	0	0.415789	0	G|0.389;A|0.611	0.611	strong	.	RAB11FIP1	105	.	NM_001002814	exon4	c.C1952T	p.A651V	CCCAGGGCAGAAG	.	PASS	Atlas-SNP
OASL	8638	hgsc.bcm.edu	37	12	121471337	121471337	+	Silent	SNP	G	G	A	rs3213545	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	57	110	0	0.508929	0	G|0.722;A|0.278	0.278	strong	.	OASL	49	.	NM_198213	exon2	c.C408T	p.L136L	GAAGACGAGAGCA	.	PASS	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	37	7	55214348	55214348	+	Silent	SNP	C	C	T	rs2072454	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	50	90	0	0.438596	0	C|0.506;N|0.000	.	strong	EGFR_ENST00000344576,colon,carcinoma,0,5	EGFR	20426	5	NM_201283	exon4	c.C474T	p.N158N	GTGCAACGTGGAG	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36870122	36870122	+	Silent	SNP	T	T	G	rs1205435	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	94	145	0	0.51087	0	T|0.674;G|0.319;A|0.007	0.319	strong	.	KIAA1755	145	.	NM_001029864	exon3	c.A411C	p.P137P	TGGCTCTGGAACA	.	PASS	Atlas-SNP
NAF1	92345	hgsc.bcm.edu	37	4	164050186	164050186	+	Missense_Mutation	SNP	C	C	T	rs200516616	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	66	136	0	0.515625	0	.	.	weak	.	NAF1	69	.	NM_138386	exon8	c.G1348A	p.G450S	CCCAACCCATGTT	.	PASS	Atlas-SNP
SPEM1	374768	hgsc.bcm.edu	37	17	7324788	7324788	+	Missense_Mutation	SNP	G	G	A	rs33989543	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	27	71	0	0.45	0	G|0.924;A|0.076	0.076	strong	.	SPEM1	41	.	NM_199339	exon3	c.G794A	p.R265Q	ATGCCCGGGACAT	.	PASS	Atlas-SNP
ITGAX	3687	hgsc.bcm.edu	37	16	31374535	31374535	+	Missense_Mutation	SNP	C	C	G	rs2230429	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	83	180	0	0.479769	0	C|0.671;G|0.329	0.329	strong	.	ITGAX	198	.	NM_000887	exon14	c.C1550G	p.P517R	GCCACCCCTGGGG	.	PASS	Atlas-SNP
EDA2R	60401	hgsc.bcm.edu	37	X	65824986	65824986	+	Missense_Mutation	SNP	C	C	T	rs1385699	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	108	219	0	0.990826	0	C|0.436;0|0.005	.	strong	.	EDA2R	30	.	NM_001242310	exon2	c.G170A	p.R57K	TGACATCTGTGGT	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79025503	79025503	+	Silent	SNP	C	C	T	rs76977444	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	66	106	0	0.532258	0	C|0.993;T|0.007	0.007	strong	CMYA5_ENST00000446378,NS,haematopoietic_neoplasm,0,2	CMYA5	643	2	NM_153610	exon2	c.C915T	p.G305G	GAGAGGCGCACTC	.	PASS	Atlas-SNP
OR10A4	283297	hgsc.bcm.edu	37	11	6898758	6898758	+	Silent	SNP	A	A	C	rs7102808	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	48	102	0	0.48	0	A|0.839;C|0.161	0.161	strong	.	OR10A4	65	.	NM_207186	exon1	c.A880C	p.R294R	AGCTCAAGGAATA	.	PASS	Atlas-SNP
CCNT2	905	hgsc.bcm.edu	37	2	135711657	135711657	+	Silent	SNP	G	G	A	rs3814354	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	78	127	0	0.445714	0	G|0.375;A|0.625	0.625	strong	CCNT2_ENST00000264157,colon,carcinoma,0,3	CCNT2	98	3	NM_058241	exon9	c.G1632A	p.K544K	TGGGAAGAGCAAA	.	PASS	Atlas-SNP
LGR6	59352	hgsc.bcm.edu	37	1	202287537	202287537	+	Silent	SNP	G	G	A	rs788794	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	35	54	0	0.729167	0	G|0.538;A|0.462	0.462	strong	.	LGR6	102	.	NM_001017403	exon18	c.G2106A	p.A702A	CGCCGCGCTGCCC	.	PASS	Atlas-SNP
ANKRD6	22881	hgsc.bcm.edu	37	6	90340446	90340446	+	Missense_Mutation	SNP	C	C	T	rs61739327	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	16	74	0	0.347826	0	C|0.907;T|0.093	0.093	strong	.	ANKRD6	51	.	NM_001242809	exon16	c.C1907T	p.P636L	AGCAACCCGCAGC	.	PASS	Atlas-SNP
GPIHBP1	338328	hgsc.bcm.edu	37	8	144295782	144295782	+	Silent	SNP	G	G	T	rs11538388	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	50	101	0	0.50505	0	G|0.641;T|0.359	0.359	strong	.	GPIHBP1	12	.	NM_178172	exon2	c.G138T	p.V46V	TGAGGTGGAAGAG	.	PASS	Atlas-SNP
ZNF45	7596	hgsc.bcm.edu	37	19	44417575	44417575	+	Silent	SNP	A	A	G	rs417699	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	43	96	0	0.452632	0	A|0.474;G|0.526	0.526	strong	ZNF45,NS,carcinoma,-2,2	ZNF45	51	2	NM_003425	exon10	c.T2013C	p.F671F	TGAAGGAAAGTCC	.	PASS	Atlas-SNP
CCDC50	152137	hgsc.bcm.edu	37	3	191093175	191093175	+	Missense_Mutation	SNP	T	T	A	rs2028574	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	46	90	0	0.69697	0	A|0.494;N|0.000	0.494	strong	.	CCDC50	39	.	NM_178335	exon6	c.T773A	p.I258N	CTAAGATTAACCA	.	PASS	Atlas-SNP
ALPK3	57538	hgsc.bcm.edu	37	15	85405995	85405995	+	Missense_Mutation	SNP	T	T	C	rs187316	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	76	176	0	0.475	0	T|0.815;C|0.185	0.185	strong	.	ALPK3	289	.	NM_020778	exon10	c.T4865C	p.L1622P	GTGGCCTTCGGAA	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	20104669	20104669	+	Silent	SNP	G	G	A	rs2028570	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	55	120	0	0.45082	0	G|0.585;A|0.415	0.415	strong	.	NAV2	255	.	NM_001244963	exon28	c.G5619A	p.P1873P	GTTACCGCACAAT	.	PASS	Atlas-SNP
CHD5	26038	hgsc.bcm.edu	37	1	6185608	6185608	+	Silent	SNP	G	G	A	rs61749270	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	52	93	0	0.597701	0	G|0.985;A|0.015	0.015	strong	.	CHD5	267	.	NM_015557	exon28	c.C4236T	p.L1412L	TCGGGCGAGAAGC	.	PASS	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	37	2	15601441	15601441	+	Silent	SNP	C	C	T	rs7590340	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	41	102	0	0.43617	0	C|0.410;T|0.590	0.590	strong	.	NBAS	246	.	NM_015909	exon21	c.G2223A	p.L741L	AATTTCCAGGGCT	.	PASS	Atlas-SNP
PCDHGA8	9708	hgsc.bcm.edu	37	5	140774505	140774505	+	Missense_Mutation	SNP	G	G	T	rs367656720		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	89	141	0	0.684615	0	.	.	weak	.	PCDHGA8	146	.	NM_014004	exon1	c.G2125T	p.A709S	TTTGTCGCTGTGC	.	PASS	Atlas-SNP
MLC1	23209	hgsc.bcm.edu	37	22	50518815	50518815	+	Silent	SNP	C	C	T	rs11568172	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	20	63	0	0.322581	0	C|0.995;T|0.005	0.005	strong	.	MLC1	48	.	NM_015166	exon4	c.G279A	p.S93S	AATTGCCGAGGGG	.	PASS	Atlas-SNP
MEF2A	4205	hgsc.bcm.edu	37	15	100246936	100246936	+	Silent	SNP	T	T	C	rs325408	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	107	104	0	0.990741	0	T|0.332;C|0.668	0.668	strong	.	MEF2A	138	.	NM_005587	exon9	c.T867C	p.N289N	ACAGAATACCCAG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9077581	9077581	+	Missense_Mutation	SNP	G	G	T	rs73011014	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	534	266	509	0	0.498127	0	G|0.809;T|0.191	0.191	strong	.	MUC16	4315	.	NM_024690	exon3	c.C9865A	p.P3289T	CAGGTGGGGATGG	.	PASS	Atlas-SNP
DPP3	10072	hgsc.bcm.edu	37	11	66254085	66254085	+	Missense_Mutation	SNP	G	G	T	rs11550299	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	99	226	0	0.430435	0	G|0.781;T|0.219	0.219	strong	DPP3,colon,carcinoma,0,2	DPP3	61	2	NM_130443	exon4	c.G435T	p.Q145H	CTGGCAGACCTGC	.	PASS	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	37	17	17698023	17698023	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	25	70	0	0.5	0	.	.	none	.	RAI1	121	.	NM_030665	exon3	c.C1761T	p.F587F	CAAGTTCGTGGCG	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40408821	40408821	+	Missense_Mutation	SNP	C	C	G	rs45613437	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	72	168	0	0.421053	0	.	.	weak	FCGBP,caecum,carcinoma,0,2	FCGBP	416	2	NM_003890	exon8	c.G4018C	p.V1340L	GCACCACGGGCAG	.	PASS	Atlas-SNP
COL5A2	1290	hgsc.bcm.edu	37	2	189932764	189932764	+	Missense_Mutation	SNP	G	G	A	rs35830636	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	70	99	0	0.503597	0	G|0.965;A|0.035	0.035	strong	.	COL5A2	230	.	NM_000393	exon21	c.C1378T	p.P460S	CCTGAGGACCAGT	.	PASS	Atlas-SNP
TET2	54790	hgsc.bcm.edu	37	4	106196951	106196951	+	Missense_Mutation	SNP	A	A	G	rs2454206	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	57	77	0	0.982759	0	A|0.768;G|0.232	0.232	strong	.	TET2	1762	.	NM_001127208	exon11	c.A5284G	p.I1762V	TCTCACATAATCC	.	PASS	Atlas-SNP
THAP8	199745	hgsc.bcm.edu	37	19	36530343	36530343	+	Missense_Mutation	SNP	C	C	T	rs10421966	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	18	46	0	0.666667	0	C|0.695;T|0.305	0.305	strong	.	THAP8	11	.	NM_152658	exon3	c.G554A	p.R185Q	AGCCTCCGCACCC	.	PASS	Atlas-SNP
FN3K	64122	hgsc.bcm.edu	37	17	80708601	80708601	+	Silent	SNP	C	C	G	rs1056534	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	33	66	0	0.52381	0	C|0.373;G|0.627	0.627	strong	.	FN3K	17	.	NM_022158	exon6	c.C900G	p.S300S	CCCTTCCTTGGGC	.	PASS	Atlas-SNP
UHRF1BP1	54887	hgsc.bcm.edu	37	6	34824107	34824107	+	Missense_Mutation	SNP	A	A	C	rs16894945	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	69	177	0	0.392045	0	A|0.884;C|0.116	0.116	strong	.	UHRF1BP1	102	.	NM_017754	exon10	c.A1212C	p.K404N	GAGCAAAATGGAG	.	PASS	Atlas-SNP
TAP2	6891	hgsc.bcm.edu	37	6	32797809	32797809	+	Missense_Mutation	SNP	C	C	T	rs2228396	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	108	161	0	0.425197	0	C|0.911;T|0.089	0.089	strong	.	TAP2	98	.	NM_018833	exon10	c.G1693A	p.A565T	CATAAGCAATGTT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076728	9076728	+	Missense_Mutation	SNP	C	C	T	rs2591594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	427	219	408	1	0.512881	0.00245098	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
CLCNKB	1188	hgsc.bcm.edu	37	1	16382243	16382243	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	54	170	0	0.4	0	.	.	none	.	CLCNKB	50	.	NM_000085	exon18	c.C1919A	p.S640Y	AGACTTCCCTGCA	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388429	1388429	+	Missense_Mutation	SNP	G	G	A	rs79298048	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	212	262	0	0.876033	0	G|0.725;A|0.275	0.275	strong	CRIPAK,colon,carcinoma,0,2	CRIPAK	185	2	NM_175918	exon1	c.G130A	p.A44T	GTGCCCGCCTGCT	.	PASS	Atlas-SNP
LILRB1	10859	hgsc.bcm.edu	37	19	55144186	55144186	+	Silent	SNP	C	C	T	rs61746606	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	226	273	0	0.930041	0	C|0.281;T|0.719	0.719	strong	LILRB1,NS,carcinoma,+2,1	LILRB1	140	1	NM_001081637	exon6	c.C933T	p.S311S	CCCCAGCGACCCC	.	PASS	Atlas-SNP
OR10K2	391107	hgsc.bcm.edu	37	1	158390252	158390252	+	Silent	SNP	T	T	G	rs12239443	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	404	403	306	1	0.997525	0.00326797	T|0.635;G|0.365	0.365	strong	.	OR10K2	69	.	NM_001004476	exon1	c.A405C	p.L135L	TCCCATTAGCACT	.	PASS	Atlas-SNP
EPHA2	1969	hgsc.bcm.edu	37	1	16464673	16464673	+	Silent	SNP	G	G	A	rs2230597	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	7	36	0	0.318182	0	G|0.649;A|0.351	0.351	strong	.	EPHA2	102	.	NM_004431	exon5	c.C987T	p.P329P	GGCGGAGGGGGGT	.	PASS	Atlas-SNP
SORT1	6272	hgsc.bcm.edu	37	1	109884775	109884775	+	Silent	SNP	T	T	G	rs2228604	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	97	152	0	0.62987	0	T|0.284;G|0.716	0.716	strong	.	SORT1	48	.	NM_002959	exon9	c.A969C	p.T323T	TCTTGTTGTATCC	.	PASS	Atlas-SNP
RPS6KA4	8986	hgsc.bcm.edu	37	11	64138805	64138805	+	Silent	SNP	T	T	C	rs11542299	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	46	87	0	0.479167	0	T|0.729;C|0.271	0.271	strong	RPS6KA4_ENST00000334205,NS,carcinoma,+1,2	RPS6KA4	85	2	NM_003942	exon17	c.T2172C	p.N724N	GGAGAATGCACCC	.	PASS	Atlas-SNP
IL24	11009	hgsc.bcm.edu	37	1	207074905	207074905	+	Missense_Mutation	SNP	T	T	C	rs1150258	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	108	232	0	0.425197	0	T|0.623;G|0.003	.	strong	.	IL24	20	.	NM_001185156	exon5	c.T373C	p.Y125H	AAAAACTACCACA	.	PASS	Atlas-SNP
NOXA1	10811	hgsc.bcm.edu	37	9	140327663	140327663	+	Missense_Mutation	SNP	C	C	T	rs34155071	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	43	82	0	0.530864	0	C|0.795;T|0.205	0.205	strong	NOXA1,colon,carcinoma,0,1	NOXA1	32	1	NM_006647	exon10	c.C857T	p.P286L	GGCTGCCGGCAAT	.	PASS	Atlas-SNP
FBXO7	25793	hgsc.bcm.edu	37	22	32871365	32871365	+	Missense_Mutation	SNP	G	G	A	rs9621461	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	39	84	0	0.541667	0	G|0.928;A|0.072	0.072	strong	.	FBXO7	131	.	NM_001033024	exon1	c.G17A	p.G6E	CTCCCGGGGGCTC	.	PASS	Atlas-SNP
FAM169A	26049	hgsc.bcm.edu	37	5	74077474	74077474	+	Silent	SNP	C	C	T	rs16872269	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	66	166	0	0.452055	0	C|0.909;T|0.091	0.091	strong	.	FAM169A	61	.	NM_015566	exon13	c.G1824A	p.K608K	CTGATTCTTCTGT	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65263300	65263300	+	Missense_Mutation	SNP	C	C	T	rs229587	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	60	123	0	0.5	0	C|0.569;N|0.000	.	strong	.	SPTB	378	.	NM_001024858	exon10	c.G1316A	p.S439N	TTTTCACTGAGCC	.	PASS	Atlas-SNP
SCN9A	6335	hgsc.bcm.edu	37	2	167144995	167144995	+	Silent	SNP	T	T	C	rs13402180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	56	112	0	0.41791	0	C|0.338;T|0.662	0.338	strong	.	SCN9A	296	.	NM_002977	exon10	c.A1266G	p.E422E	TTGAAATTCTAAT	.	PASS	Atlas-SNP
CEACAM20	125931	hgsc.bcm.edu	37	19	45028169	45028169	+	Missense_Mutation	SNP	C	C	T	rs7260180	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	245	232	2	0.987903	0.00862069	C|0.629;T|0.371	0.371	strong	.	CEACAM20	31	.	NM_001102600	exon3	c.G322A	p.V108I	ACACAACGGAGAG	.	PASS	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	37	20	33565480	33565480	+	Silent	SNP	C	C	T	rs6060137	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	64	136	0	0.407643	0	C|0.748;T|0.252	0.252	strong	.	MYH7B	145	.	NM_020884	exon4	c.C51T	p.A17A	TGGTGCCGAGGTA	.	PASS	Atlas-SNP
XRN1	54464	hgsc.bcm.edu	37	3	142102247	142102247	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	3	148	0	0.0197368	0	.	.	none	XRN1,NS,carcinoma,-1,1	XRN1	138	1	NM_001042604	exon22	c.A2511G	p.R837R	GAAAGCTCGGATG	.	scavenged	Atlas-SNP
XKR9	389668	hgsc.bcm.edu	37	8	71646461	71646461	+	Silent	SNP	C	C	T	rs74975207	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	83	182	0	0.463687	0	C|0.970;T|0.030	0.030	strong	.	XKR9	43	.	NM_001011720	exon5	c.C924T	p.C308C	GGTTTGCCCCCTC	.	PASS	Atlas-SNP
OR4S2	219431	hgsc.bcm.edu	37	11	55419160	55419160	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	4	61	0	0.028169	0	.	.	none	OR4S2,colon,carcinoma,-1,1	OR4S2	89	1	NM_001004059	exon1	c.A781G	p.T261A	CCTGATACGACCT	.	scavenged	Atlas-SNP
PTGFRN	5738	hgsc.bcm.edu	37	1	117529458	117529458	+	Missense_Mutation	SNP	G	G	A	rs10801922	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	94	126	0	0.989474	0	G|0.560;A|0.440	0.440	strong	PTGFRN,NS,carcinoma,-2,1	PTGFRN	91	1	NM_020440	exon9	c.G2509A	p.V837I	ATCGGCGTCGGTC	.	PASS	Atlas-SNP
FLRT1	23769	hgsc.bcm.edu	37	11	63885704	63885704	+	Silent	SNP	C	C	T	rs677447	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	117	95	0	0.983193	0	C|0.533;T|0.467	0.467	strong	.	FLRT1	46	.	NM_013280	exon2	c.C1965T	p.Y655Y	TGGCTACGGCACC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515387	195515387	+	Missense_Mutation	SNP	T	T	C	rs13065584	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	33	602	12	0.186441	0.0199336	T|0.992;C|0.008	0.008	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.A3064G	p.T1022A	GGGTGGTGTGACC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	95	187	0	0.516304	0	G|0.478;N|0.000	0.478	strong	.	TMBIM4	47	.	NM_016056	exon3	c.T263C	p.I88T	TTTAAAATCAACG	.	PASS	Atlas-SNP
PARP12	64761	hgsc.bcm.edu	37	7	139727135	139727135	+	Silent	SNP	G	G	A	rs2286196	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	89	159	0	0.536145	0	G|0.728;T|0.002	.	strong	.	PARP12	59	.	NM_022750	exon10	c.C1569T	p.F523F	AAAGTAGAAAGGC	.	PASS	Atlas-SNP
TRPM1	4308	hgsc.bcm.edu	37	15	31329944	31329944	+	Silent	SNP	G	G	A	rs12911350	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	80	176	0	0.412371	0	G|0.909;A|0.091	0.091	strong	.	TRPM1	183	.	NM_001252020	exon19	c.C2592T	p.N864N	GGGCGCGTTATAG	.	PASS	Atlas-SNP
SSTR4	6754	hgsc.bcm.edu	37	20	23017044	23017044	+	Silent	SNP	C	C	T	rs3746728	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	72	161	0	0.464516	0	C|0.669;T|0.331	0.331	strong	SSTR4,colon,carcinoma,0,2	SSTR4	83	2	NM_001052	exon1	c.C924T	p.P308P	CAACCCCATTCTC	.	PASS	Atlas-SNP
GPC6	10082	hgsc.bcm.edu	37	13	95034763	95034763	+	Silent	SNP	G	G	A	rs2274020	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	88	145	0	0.553459	0	G|0.881;A|0.119	0.119	strong	GPC6,NS,carcinoma,0,1	GPC6	102	1	NM_005708	exon7	c.G1248A	p.T416T	GGGCACGTCCAAC	.	PASS	Atlas-SNP
DENND4A	10260	hgsc.bcm.edu	37	15	65994733	65994733	+	Silent	SNP	C	C	T	rs17810074	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	99	225	0	0.502538	0	C|0.761;T|0.239	0.239	strong	.	DENND4A	217	.	NM_001144823	exon17	c.G2340A	p.V780V	GACTTTCACATAA	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84779248	84779248	+	Silent	SNP	T	T	G	rs7185949	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	62	115	0	0.521008	0	T|0.769;G|0.231	0.231	strong	.	USP10	51	.	NM_001272075	exon5	c.T1173G	p.V391V	TCCGGTTTCAGAG	.	PASS	Atlas-SNP
EPX	8288	hgsc.bcm.edu	37	17	56272390	56272390	+	Silent	SNP	A	A	G	rs2240815	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	57	99	0	0.587629	0	A|0.474;G|0.526	0.526	strong	.	EPX	95	.	NM_000502	exon6	c.A660G	p.R220R	TGGCCGAGCCCTC	.	PASS	Atlas-SNP
NOD2	64127	hgsc.bcm.edu	37	16	50745583	50745583	+	Silent	SNP	T	T	G	rs1861759	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	39	98	0	0.513158	0	T|0.709;G|0.291	0.291	strong	.	NOD2	118	.	NM_022162	exon4	c.T1761G	p.R587R	GGTGCGTGCCAAA	.	PASS	Atlas-SNP
SLIT1	6585	hgsc.bcm.edu	37	10	98924600	98924600	+	Missense_Mutation	SNP	G	G	A	rs41307074	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	39	77	0	0.453488	0	G|0.958;A|0.042	0.042	strong	SLIT1,colon,carcinoma,0,1	SLIT1	154	1	NM_003061	exon2	c.C245T	p.A82V	AGCCCCGCAAAGT	.	PASS	Atlas-SNP
ZNF248	57209	hgsc.bcm.edu	37	10	38120945	38120945	+	Silent	SNP	A	A	G	rs1211708	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	55	157	0	0.458333	0	A|0.938;G|0.062	0.062	strong	.	ZNF248	61	.	NM_001267597	exon6	c.T1338C	p.C446C	CTTCACACAGAAT	.	PASS	Atlas-SNP
BMS1	9790	hgsc.bcm.edu	37	10	43316099	43316099	+	Silent	SNP	T	T	C	rs61736599	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	628	320	648	0	0.509554	0	T|0.913;C|0.087	0.087	strong	.	BMS1	132	.	NM_014753	exon17	c.T2913C	p.Y971Y	AAAGTATACCCCA	.	PASS	Atlas-SNP
LMX1A	4009	hgsc.bcm.edu	37	1	165218792	165218792	+	Silent	SNP	G	G	A	rs10753668	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	124	204	0	0.541485	0	G|0.743;A|0.257	0.257	strong	.	LMX1A	87	.	NM_001174069	exon4	c.C349T	p.L117L	AGCTCAGGTGGTA	.	PASS	Atlas-SNP
ATRN	8455	hgsc.bcm.edu	37	20	3564672	3564672	+	Silent	SNP	C	C	T	rs235540	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	196	145	0	1	0	C|0.239;T|0.761	0.761	strong	.	ATRN	118	.	NM_139321	exon17	c.C2892T	p.Y964Y	TGCCTACGTGGCC	.	PASS	Atlas-SNP
KLHL6	89857	hgsc.bcm.edu	37	3	183212026	183212026	+	Silent	SNP	C	C	T	rs2256061	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	77	129	0	0.463855	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
CES4A	283848	hgsc.bcm.edu	37	16	67037035	67037035	+	Silent	SNP	A	A	G	rs61744392	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	58	156	0	0.417266	0	A|0.974;G|0.026	0.026	strong	.	CES4A	24	.	NM_173815	exon6	c.A753G	p.L251L	CGCGTTATTCAGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	59	109	0	0.495798	0	T|0.601;C|0.399	0.399	strong	.	WDR24	111	.	NM_032259	exon5	c.A1521G	p.A507A	GCTCCGTGCATCT	.	PASS	Atlas-SNP
SPATS1	221409	hgsc.bcm.edu	37	6	44320548	44320548	+	Silent	SNP	T	T	A	rs4714783	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	202	148	1	1	0.00675676	T|0.261;A|0.739	0.739	strong	.	SPATS1	61	.	NM_145026	exon3	c.T225A	p.S75S	ATCTTCTGTGGAA	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238929	31238929	+	Silent	SNP	C	C	G	rs71552047	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	368	20	414	1	0.0543478	0.00241546	CCG|0.500;GTC|0.500	.	alt	HLA-C_ENST00000383329,NS,carcinoma,-1,2	HLA-C	92	2	NM_002117	exon3	c.G540C	p.L180L	GGCTCTCAGCTGC	.	scavenged	Atlas-SNP
NLRP2	55655	hgsc.bcm.edu	37	19	55512137	55512137	+	Silent	SNP	C	C	A	rs12768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	37	84	0	0.440476	0	T|0.004;G|0.004	.	strong	.	NLRP2	161	.	NM_017852	exon13	c.C3060A	p.I1020I	GAAAATCGATGAC	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54726226	54726226	+	Silent	SNP	T	T	C	rs75672336	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	627	624	432	2	0.995215	0.00462963	C|1.000;|0.000	1.000	weak	.	LILRB3	67	.	NM_006864	exon3	c.A279G	p.A93A	TCTCCCTGCATGG	.	PASS	Atlas-SNP
SFTPB	6439	hgsc.bcm.edu	37	2	85893842	85893842	+	Silent	SNP	C	C	T	rs34682912	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	38	77	0	0.457831	0	C|0.997;T|0.003	0.003	strong	.	SFTPB	49	.	NM_198843	exon5	c.G327A	p.E109E	CTCCTGCTCCAGG	.	PASS	Atlas-SNP
SLC22A23	63027	hgsc.bcm.edu	37	6	3273457	3273457	+	Silent	SNP	A	A	G	rs9503518	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	87	97	0	1	0	A|0.899;G|0.101	0.101	strong	.	SLC22A23	89	.	NM_015482	exon10	c.T1893C	p.S631S	CCCGTTAGAAATG	.	PASS	Atlas-SNP
EBNA1BP2	10969	hgsc.bcm.edu	37	1	43632536	43632536	+	Missense_Mutation	SNP	C	C	T	rs7163	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	54	116	0	0.534653	0	C|0.805;T|0.195	0.195	strong	.	EBNA1BP2	37	.	NM_001159936	exon8	c.G833A	p.R278H	TTCTTGCGCTGTG	.	PASS	Atlas-SNP
ZNF175	7728	hgsc.bcm.edu	37	19	52090100	52090100	+	Silent	SNP	T	T	C	rs45541134	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	49	106	0	0.316129	0	T|0.795;C|0.205	0.205	strong	.	ZNF175	65	.	NM_007147	exon5	c.T516C	p.N172N	AAGCAATTGTGAA	.	PASS	Atlas-SNP
ICT1	3396	hgsc.bcm.edu	37	17	73016621	73016621	+	Silent	SNP	C	C	T	rs1044228	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	110	145	0	1	0	C|0.689;T|0.311	0.311	strong	.	ICT1	17	.	NM_001545	exon5	c.C405T	p.L135L	GATCCTCACCTCT	.	PASS	Atlas-SNP
OR2B11	127623	hgsc.bcm.edu	37	1	247614896	247614896	+	Missense_Mutation	SNP	A	A	C	rs11583410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	47	84	0	0.419643	0	A|0.630;C|0.370	0.370	strong	.	OR2B11	102	.	NM_001004492	exon1	c.T389G	p.I130S	TTGCAGATGGCCA	.	PASS	Atlas-SNP
CD200	4345	hgsc.bcm.edu	37	3	112063850	112063850	+	Missense_Mutation	SNP	C	C	A	rs2272022	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	61	99	0	0.512605	0	C|0.748;A|0.252	0.252	strong	.	CD200	33	.	NM_001004196	exon4	c.C211A	p.P71T	TACACACCTGCTT	.	PASS	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	37	1	86900332	86900332	+	Silent	SNP	T	T	C	rs17449526	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	37	157	0	0.296	0	T|0.721;C|0.279	0.279	strong	.	CLCA2	102	.	NM_006536	exon6	c.T876C	p.N292N	CATGAATGGGACT	.	PASS	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	37	4	85762385	85762385	+	Silent	SNP	T	T	C	rs2046402	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	28	59	0	0.405797	0	T|0.572;C|0.428	0.428	strong	.	WDFY3	314	.	NM_014991	exon6	c.A336G	p.L112L	AATCTCTAGGAAC	.	PASS	Atlas-SNP
AMH	268	hgsc.bcm.edu	37	19	2249583	2249583	+	Silent	SNP	G	G	A	rs61736572	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	42	73	0	0.525	0	G|0.944;A|0.056	0.056	strong	.	AMH	12	.	NM_000479	exon1	c.G252A	p.L84L	CTTCCTGGGGGCC	.	PASS	Atlas-SNP
BSPRY	54836	hgsc.bcm.edu	37	9	116132275	116132275	+	Silent	SNP	G	G	A	rs3750529	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	30	77	0	0.384615	0	G|0.919;A|0.081	0.081	strong	.	BSPRY	21	.	NM_017688	exon6	c.G1062A	p.L354L	CCAGCTGGGTGTA	.	PASS	Atlas-SNP
FCN2	2220	hgsc.bcm.edu	37	9	137775155	137775155	+	Silent	SNP	T	T	C	rs4520243	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	74	93	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
DPCR1	135656	hgsc.bcm.edu	37	6	30918400	30918400	+	Missense_Mutation	SNP	A	A	G	rs2844699	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	104	131	1	0.550265	0.00763359	A|0.768;G|0.232	0.232	strong	DPCR1_ENST00000462446,NS,carcinoma,0,1	DPCR1	99	1	NM_080870	exon2	c.A2159G	p.E720G	CAGCAGAGCCTAC	.	scavenged	Atlas-SNP
KRTAP10-6	386674	hgsc.bcm.edu	37	21	46011468	46011468	+	Missense_Mutation	SNP	G	G	A	rs465279	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	278	277	264	1	0.996403	0.00378788	G|0.469;A|0.531	0.531	strong	.	KRTAP10-6	57	.	NM_198688	exon1	c.C898T	p.P300S	AGGAGGGTCTGCA	.	PASS	Atlas-SNP
SLC22A14	9389	hgsc.bcm.edu	37	3	38355225	38355225	+	Missense_Mutation	SNP	G	G	A	rs73064822	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	26	44	0	0.541667	0	G|0.825;A|0.175	0.175	strong	.	SLC22A14	64	.	NM_004803	exon7	c.G1171A	p.V391I	TTTACCGTCAGTT	.	PASS	Atlas-SNP
SLC4A4	8671	hgsc.bcm.edu	37	4	72433545	72433545	+	Missense_Mutation	SNP	A	A	C	rs1062677	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	105	176	0	0.483871	0	A|0.847;C|0.153	0.153	strong	.	SLC4A4	269	.	NM_001134742	exon25	c.A3220C	p.I1074L	ATTAGAATAGAAC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239613	31239613	+	Missense_Mutation	SNP	C	C	T	rs2308538	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	36	89	5	0.423529	0.0561798	T|0.155;C|0.845	0.155	strong	HLA-C_ENST00000383329,NS,carcinoma,0,2	HLA-C	92	2	NM_002117	exon2	c.G106A	p.V36M	GGGACACGGCGGT	.	scavenged	Atlas-SNP
HS3ST3B1	9953	hgsc.bcm.edu	37	17	14248423	14248423	+	Silent	SNP	T	T	C	rs9906855	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	99	310	1	0.99	0.00322581	T|0.518;C|0.482	0.482	strong	.	HS3ST3B1	19	.	NM_006041	exon2	c.T633C	p.P211P	GGCCCCTGCGCGC	.	PASS	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	37	20	33584289	33584289	+	Silent	SNP	C	C	T	rs3746438	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	45	97	0	0.463918	0	C|0.542;T|0.458	0.458	strong	.	MYH7B	145	.	NM_020884	exon29	c.C3210T	p.T1070T	GCTGACCAAGGCC	.	PASS	Atlas-SNP
HNRNPUL1	11100	hgsc.bcm.edu	37	19	41809995	41809995	+	Silent	SNP	A	A	G	rs1056854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	26	66	0	0.42623	0	A|0.867;G|0.133	0.133	strong	.	HNRNPUL1	73	.	NM_007040	exon13	c.A2091G	p.P697P	GCCGCCACCACAG	.	PASS	Atlas-SNP
PDHB	5162	hgsc.bcm.edu	37	3	58416535	58416535	+	Silent	SNP	C	C	T	rs1126551	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	83	138	0	0.491124	0	C|0.695;T|0.305	0.305	strong	PDHB,NS,carcinoma,0,1	PDHB	19	1	NM_000925	exon6	c.G438A	p.G146G	ATTGGGCCCTCTG	.	PASS	Atlas-SNP
FERMT3	83706	hgsc.bcm.edu	37	11	63988102	63988102	+	Silent	SNP	C	C	T	rs3802933	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	36	130	0	0.356436	0	A|0.000;C|0.843;G|0.000;T|0.156	0.156	strong	.	FERMT3	51	.	NM_178443	exon12	c.C1518T	p.L506L	CGGCCTCGTTGCC	.	PASS	Atlas-SNP
CIDEC	63924	hgsc.bcm.edu	37	3	9908935	9908935	+	Silent	SNP	G	G	A	rs17222536	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	119	195	0	0.533632	0	G|0.939;A|0.061	0.061	strong	.	CIDEC	22	.	NM_001199623	exon6	c.C639T	p.H213H	CAGTACGTGGCCT	.	PASS	Atlas-SNP
UBR3	130507	hgsc.bcm.edu	37	2	170780657	170780657	+	Silent	SNP	C	C	T	rs61744354	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	71	145	0	0.446541	0	C|0.960;T|0.040	0.040	strong	.	UBR3	182	.	NM_172070	exon13	c.C1996T	p.L666L	ATGAAACTAATGA	.	PASS	Atlas-SNP
AXIN2	8313	hgsc.bcm.edu	37	17	63554591	63554591	+	Missense_Mutation	SNP	G	G	A	rs2240308	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	60	54	0	1	0	G|0.641;A|0.359	0.359	strong	.	AXIN2	92	.	NM_004655	exon2	c.C148T	p.P50S	AGACAGGCATGGG	.	PASS	Atlas-SNP
WBSCR28	135886	hgsc.bcm.edu	37	7	73279482	73279482	+	Missense_Mutation	SNP	T	T	C	rs13227841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	29	85	0	0.467742	0	T|0.403;C|0.597	0.597	strong	.	WBSCR28	24	.	NM_182504	exon2	c.T232C	p.W78R	GCTCTCTGGGCTG	.	PASS	Atlas-SNP
PHKG1	5260	hgsc.bcm.edu	37	7	56149410	56149410	+	Silent	SNP	G	G	A	rs12538444	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	30	94	0	0.344828	0	G|0.840;A|0.160	0.160	strong	.	PHKG1	38	.	NM_001258459	exon10	c.C927T	p.Y309Y	CGCTGTGTAGCGG	.	PASS	Atlas-SNP
CEL	1056	hgsc.bcm.edu	37	9	135946015	135946015	+	Missense_Mutation	SNP	T	T	C	rs77696629	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	313	30	210	0	0.0958466	0	T|0.980;C|0.020	0.020	strong	.	CEL	71	.	NM_001807	exon10	c.T1463C	p.I488T	CCATGATCGCCTA	.	PASS	Atlas-SNP
AGTPBP1	23287	hgsc.bcm.edu	37	9	88248239	88248239	+	Silent	SNP	T	T	C	rs144890878	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	57	154	0	0.428571	0	T|0.994;C|0.006	0.006	strong	.	AGTPBP1	128	.	NM_015239	exon14	c.A1233G	p.K411K	ACGTACTTTTCCC	.	PASS	Atlas-SNP
VAC14	55697	hgsc.bcm.edu	37	16	70726795	70726795	+	Silent	SNP	C	C	A	rs2278983	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	87	158	0	0.55414	0	A|0.318;C|0.681;T|0.000	0.318	strong	.	VAC14	65	.	NM_018052	exon18	c.G2115T	p.P705P	GCTCTGCGGCAGG	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	90052289	90052289	+	Missense_Mutation	SNP	G	G	A	rs10062026	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	40	137	0	0.333333	0	G|0.664;A|0.336	0.336	strong	.	GPR98	605	.	NM_032119	exon56	c.G11599A	p.E3867K	GAATTGGAGGAAG	.	PASS	Atlas-SNP
SART3	9733	hgsc.bcm.edu	37	12	108941700	108941700	+	Silent	SNP	C	C	G	rs11113986	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	19	50	0	0.475	0	C|0.957;G|0.043	0.043	strong	.	SART3	64	.	NM_014706	exon3	c.G507C	p.V169V	GTCATACACGTGC	.	PASS	Atlas-SNP
MCTP2	55784	hgsc.bcm.edu	37	15	94884108	94884108	+	Silent	SNP	G	G	C	rs8025851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	44	121	0	0.363636	0	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	.	PASS	Atlas-SNP
SLITRK4	139065	hgsc.bcm.edu	37	X	142718181	142718181	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	93	214	0	0.989362	0	.	.	none	.	SLITRK4	162	.	NM_001184750	exon2	c.A744G	p.L248L	TCCATATAAGTCA	.	PASS	Atlas-SNP
SRPK1	6732	hgsc.bcm.edu	37	6	35803192	35803192	+	Silent	SNP	C	C	A	rs1049649	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	76	144	0	0.417582	0	C|0.707;A|0.293	0.293	strong	.	SRPK1	61	.	NM_003137	exon16	c.G1857T	p.S619S	TTCCTGCGACCAC	.	PASS	Atlas-SNP
VSX1	30813	hgsc.bcm.edu	37	20	25059546	25059546	+	Silent	SNP	T	T	C	rs12480307	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	93	187	0	0.462687	0	T|0.715;C|0.285	0.285	strong	VSX1_ENST00000376707,caecum,carcinoma,0,2	VSX1	20	2	NM_014588	exon3	c.A546G	p.A182A	GCTGAATGCCTTC	.	PASS	Atlas-SNP
KRT2	3849	hgsc.bcm.edu	37	12	53045615	53045615	+	Silent	SNP	A	A	G	rs75253159	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	28	141	0	0.201439	0	.	.	weak	.	KRT2	94	.	NM_000423	exon1	c.T312C	p.G104G	GCTGCCACCTCCA	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744799	54744799	+	Missense_Mutation	SNP	G	G	C	rs1052975	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	635	145	474	0	0.228346	0	G|0.816;C|0.184	0.184	strong	.	LILRA6	75	.	NM_024318	exon5	c.C863G	p.P288R	TGGGAGGGGCTCA	.	PASS	Atlas-SNP
NLGN2	57555	hgsc.bcm.edu	37	17	7319124	7319124	+	Silent	SNP	C	C	T	rs145633225	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	49	60	0	0.576471	0	C|0.999;T|0.001	0.001	strong	.	NLGN2	61	.	NM_020795	exon6	c.C1332T	p.G444G	CAATGGCGAAATG	.	PASS	Atlas-SNP
RFX2	5990	hgsc.bcm.edu	37	19	6042059	6042059	+	Missense_Mutation	SNP	C	C	T	rs2288846	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	38	104	0	0.417582	0	C|0.785;T|0.215	0.215	strong	.	RFX2	60	.	NM_134433	exon4	c.G256A	p.A86T	ACATGGCTCCATT	.	PASS	Atlas-SNP
SOS2	6655	hgsc.bcm.edu	37	14	50626657	50626657	+	Silent	SNP	C	C	T	rs35530861	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	281	140	272	0	0.498221	0	C|0.997;T|0.003	0.003	strong	.	SOS2	195	.	NM_006939	exon10	c.G1344A	p.L448L	TCTTGTCAATGGT	.	PASS	Atlas-SNP
OR10A5	144124	hgsc.bcm.edu	37	11	6867462	6867462	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	281	6	259	0	0.0213523	0	.	.	none	OR10A5,NS,carcinoma,0,3	OR10A5	48	3	NM_178168	exon1	c.G549A	p.P183P	CAGCCCGCCTGTG	.	scavenged	Atlas-SNP
OR10H5	284433	hgsc.bcm.edu	37	19	15905206	15905206	+	Silent	SNP	T	T	C	rs61740798	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	283	114	321	0	0.402827	0	T|0.250;C|0.750	0.750	strong	.	OR10H5	49	.	NM_001004466	exon1	c.T348C	p.T116T	GCTCACTGTCATG	.	PASS	Atlas-SNP
PRG3	10394	hgsc.bcm.edu	37	11	57147016	57147016	+	Missense_Mutation	SNP	A	A	G	rs540687	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	121	108	0	1	0	A|0.046;G|0.954	0.954	strong	PRG3,NS,lymphoid_neoplasm,-1,1	PRG3	35	1	NM_006093	exon3	c.T326C	p.I109T	CGGCAGATCTTGC	.	PASS	Atlas-SNP
CDH17	1015	hgsc.bcm.edu	37	8	95186382	95186382	+	Silent	SNP	G	G	A	rs3214050	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	68	133	0	0.468966	0	G|0.634;A|0.366	0.366	strong	CDH17,NS,carcinoma,0,1	CDH17	119	1	NM_004063	exon6	c.C531T	p.V177V	GTACATGACATTG	.	PASS	Atlas-SNP
HOXA10	3206	hgsc.bcm.edu	37	7	27211548	27211548	+	Silent	SNP	C	C	T	rs34957925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	91	207	0	0.429245	0	C|0.959;T|0.041	0.041	strong	.	HOXA10	55	.	NM_018951	exon2	c.G1203A	p.R401R	GAGCTCCCGGATC	.	PASS	Atlas-SNP
C2orf78	388960	hgsc.bcm.edu	37	2	74043857	74043857	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	16	124	1	0.125984	0.00806452	.	.	none	C2orf78,striated_muscle,rhabdoid_tumour,0,1	C2orf78	150	1	NM_001080474	exon3	c.G2507A	p.R836Q	GTCTCCGGTCACT	.	scavenged	Atlas-SNP
ZNF667	63934	hgsc.bcm.edu	37	19	56953963	56953963	+	Missense_Mutation	SNP	G	G	A	rs35914474	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	66	169	0	0.4	0	G|0.612;A|0.388	0.388	strong	.	ZNF667	95	.	NM_022103	exon5	c.C401T	p.P134L	TTCTTAGGTTTTA	.	PASS	Atlas-SNP
TRIM46	80128	hgsc.bcm.edu	37	1	155149718	155149718	+	Silent	SNP	G	G	A	rs3814316	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	148	150	0	0.993289	0	G|0.609;A|0.391	0.391	strong	TRIM46,colon,carcinoma,0,1	TRIM46	79	1	NM_025058	exon5	c.G861A	p.T287T	GGACACGGTACAG	.	PASS	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	37	9	115941046	115941046	+	Silent	SNP	T	T	C	rs3810912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	29	93	0	0.376623	0	T|0.885;C|0.115	0.115	strong	.	FKBP15	128	.	NM_015258	exon20	c.A1950G	p.A650A	GACCTGTGCAGTG	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38949904	38949904	+	Silent	SNP	C	C	T	rs3745847	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	262	122	215	0	0.465649	0	C|0.386;T|0.614	0.614	strong	.	RYR1	708	.	NM_001042723	exon19	c.C2286T	p.P762P	CTGCCCCGTGCAG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32552112	32552112	+	Silent	SNP	A	A	G	rs1136763	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	27	37	0	0.457627	0	A|0.842;G|0.157	0.157	strong	.	HLA-DRB1	41	.	NM_002124	exon2	c.T144C	p.N48N	CGTCCCATTGAAG	.	PASS	Atlas-SNP
KANSL2	54934	hgsc.bcm.edu	37	12	49048738	49048738	+	Missense_Mutation	SNP	G	G	T	rs3741628	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	124	119	0	1	0	G|0.447;T|0.553	0.553	strong	.	.	.	.	NM_017822	exon9	c.C1333A	p.P445T	CCACTGGGTCTTC	.	PASS	Atlas-SNP
RUVBL2	10856	hgsc.bcm.edu	37	19	49513273	49513273	+	Silent	SNP	C	C	T	rs1062708	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	48	90	0	0.421053	0	C|0.579;T|0.421	0.421	strong	.	RUVBL2	31	.	NM_006666	exon8	c.C613T	p.L205L	TCCAAGCTGGGCC	.	PASS	Atlas-SNP
TBX10	347853	hgsc.bcm.edu	37	11	67402362	67402362	+	Missense_Mutation	SNP	T	T	G	rs3758938	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	49	106	0	0.382812	0	T|0.753;G|0.247	0.247	strong	.	TBX10	25	.	NM_005995	exon3	c.A302C	p.K101T	AGGATCTTCACCT	.	PASS	Atlas-SNP
OR52N4	390072	hgsc.bcm.edu	37	11	5776484	5776484	+	Nonsense_Mutation	SNP	A	A	T	rs4910844	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	70	165	0	0.419162	0	A|0.784;T|0.216	0.216	strong	.	OR52N4	55	.	NM_001005175	exon1	c.A514T	p.R172X	TACTGCAGAGGCA	.	PASS	Atlas-SNP
TMEM132C	92293	hgsc.bcm.edu	37	12	128899673	128899673	+	Missense_Mutation	SNP	A	A	G	rs11059681	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	58	152	0	0.423358	0	A|0.571;G|0.429	0.429	strong	.	TMEM132C	142	.	NM_001136103	exon2	c.A482G	p.H161R	ATGACCACGGCGC	.	PASS	Atlas-SNP
UNC13D	201294	hgsc.bcm.edu	37	17	73838639	73838639	+	Silent	SNP	C	C	T	rs373551579		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	43	84	0	0.452632	0	.	.	weak	.	UNC13D	68	.	NM_199242	exon6	c.G444A	p.G148G	GCTGCCCCCTGGC	.	PASS	Atlas-SNP
DOCK1	1793	hgsc.bcm.edu	37	10	129245684	129245684	+	Missense_Mutation	SNP	G	G	A	rs869801	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	53	121	0	0.514563	0	G|0.786;A|0.214	0.214	strong	DOCK1,NS,carcinoma,0,1	DOCK1	188	1	NM_001380	exon51	c.G5377A	p.A1793T	ACGGGGGCGGACG	.	PASS	Atlas-SNP
TMEM180	79847	hgsc.bcm.edu	37	10	104230437	104230437	+	Silent	SNP	C	C	G	rs3740416	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	19	83	0	0.422222	0	C|0.872;G|0.128	0.128	strong	.	TMEM180	33	.	NM_024789	exon5	c.C267G	p.L89L	CGGGCTCTCCTCA	.	PASS	Atlas-SNP
AXIN2	8313	hgsc.bcm.edu	37	17	63532528	63532528	+	Missense_Mutation	SNP	G	G	A	rs138287857	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	68	146	0	0.548387	0	G|0.998;A|0.002	0.002	strong	.	AXIN2	92	.	NM_004655	exon8	c.C2051T	p.A684V	GGCATCGCAGGGT	.	PASS	Atlas-SNP
FAM83B	222584	hgsc.bcm.edu	37	6	54735122	54735122	+	Silent	SNP	A	A	G	rs1472679	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	116	146	0	0.597938	0	A|0.584;G|0.416	0.416	strong	.	FAM83B	186	.	NM_001010872	exon2	c.A78G	p.E26E	CAAGGAATGGTAT	.	PASS	Atlas-SNP
SH2D4B	387694	hgsc.bcm.edu	37	10	82363340	82363340	+	Silent	SNP	C	C	A	rs7069048	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	33	96	1	0.358696	0.0104167	C|0.624;A|0.376	0.376	strong	SH2D4B,NS,carcinoma,-1,2	SH2D4B	44	2	NM_207372	exon5	c.C649A	p.R217R	GTGCGCCGGTCCA	.	scavenged	Atlas-SNP
ABAT	18	hgsc.bcm.edu	37	16	8844389	8844389	+	Silent	SNP	C	C	T	rs2229157	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	60	149	0	0.521739	0	C|0.901;T|0.099	0.099	strong	.	ABAT	46	.	NM_001127448	exon5	c.C309T	p.V103V	CTCTGTCCCCATA	.	PASS	Atlas-SNP
TMPRSS11BNL	401136	hgsc.bcm.edu	37	4	69078113	69078113	+	Missense_Mutation	SNP	T	T	C	rs4463136	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	240	239	209	0	0.995833	0	T|0.271;C|0.729	0.729	strong	.	TMPRSS11BNL	4	.	NM_001129907	exon2	c.A91G	p.T31A	CAATAGTTATTCC	.	PASS	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	37	3	46009864	46009864	+	Missense_Mutation	SNP	C	C	G	rs3733100	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	61	53	0	0.983871	0	C|0.537;G|0.463	0.463	strong	.	FYCO1	115	.	NM_024513	exon8	c.G962C	p.G321A	TCCAGGCCCTGCA	.	PASS	Atlas-SNP
OPN4	94233	hgsc.bcm.edu	37	10	88422151	88422151	+	Silent	SNP	C	C	A	rs3740337	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	24	62	0	0.48	0	C|0.794;A|0.206	0.206	strong	.	OPN4	61	.	NM_001030015	exon9	c.C1249A	p.R417R	TCCATACGGAGGC	.	PASS	Atlas-SNP
SRGAP2D	100996712	hgsc.bcm.edu	37	1	206566903	206566903	+	Silent	SNP	G	G	A	rs71633585		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	336	52	308	0	0.154762	0	G|0.500;A|0.500	0.500	weak	.	.	.	.	NM_001271887	exon3	c.A245A	p.H82H	TTCAGCGTCAAGC	.	PASS	Atlas-SNP
TIMELESS	8914	hgsc.bcm.edu	37	12	56825311	56825311	+	Silent	SNP	C	C	T	rs774033	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	46	110	0	0.410714	0	C|0.565;T|0.435	0.435	strong	.	TIMELESS	107	.	NM_003920	exon8	c.G765A	p.V255V	GCGCAACACCTCC	.	PASS	Atlas-SNP
OR5M10	390167	hgsc.bcm.edu	37	11	56344993	56344993	+	Missense_Mutation	SNP	C	C	A	rs10792043	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	346	159	346	1	0.459538	0.00289017	C|0.364;A|0.636	0.636	strong	.	OR5M10	56	.	NM_001004741	exon1	c.G205T	p.V69L	TGTCTACAAAGGA	.	PASS	Atlas-SNP
PRKRA	8575	hgsc.bcm.edu	37	2	179300971	179300971	+	Silent	SNP	G	G	A	rs62176107	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	59	78	0	0.41844	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
DHX57	90957	hgsc.bcm.edu	37	2	39025555	39025555	+	Silent	SNP	G	G	A	rs1530853	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	162	151	1	1	0.00662252	G|0.437;A|0.563	0.563	strong	.	DHX57	127	.	NM_198963	exon24	c.C4047T	p.C1349C	AAGTTCGCAACGA	.	PASS	Atlas-SNP
USP21	27005	hgsc.bcm.edu	37	1	161132777	161132777	+	Missense_Mutation	SNP	G	G	A	rs17356051	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	88	159	0	0.44	0	G|0.960;A|0.040	0.040	strong	.	USP21	63	.	NM_012475	exon6	c.G962A	p.G321D	GCCGAGGCCGCCG	.	PASS	Atlas-SNP
PTPRJ	5795	hgsc.bcm.edu	37	11	48145166	48145166	+	Silent	SNP	G	G	A	rs2270993	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	28	71	0	0.466667	0	G|0.843;A|0.157	0.157	strong	PTPRJ,NS,carcinoma,0,1	PTPRJ	225	1	NM_001098503	exon5	c.G618A	p.E206E	AATAGAGCCGATC	.	PASS	Atlas-SNP
C12orf43	64897	hgsc.bcm.edu	37	12	121454257	121454257	+	Silent	SNP	T	T	A	rs2258227	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	128	137	0	1	0	T|0.231;A|0.769	0.769	strong	.	C12orf43	30	.	NM_022895	exon1	c.A21T	p.T7T	GCTCACTGTGCCA	.	PASS	Atlas-SNP
SPRR1A	6698	hgsc.bcm.edu	37	1	152957832	152957832	+	Missense_Mutation	SNP	C	C	A	rs1611762	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	134	156	0	0.617512	0	C|0.457;A|0.543	0.543	strong	.	SPRR1A	17	.	NM_001199828	exon2	c.C126A	p.H42Q	CTGCCACCCCAAG	.	PASS	Atlas-SNP
DAAM1	23002	hgsc.bcm.edu	37	14	59789727	59789727	+	Silent	SNP	G	G	A	rs8022614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	139	164	0	1	0	G|0.684;A|0.316	0.316	strong	.	DAAM1	95	.	NM_001270520	exon6	c.G558A	p.K186K	TATAAAGGCGTTA	.	PASS	Atlas-SNP
STRN3	29966	hgsc.bcm.edu	37	14	31381351	31381351	+	Missense_Mutation	SNP	T	T	C	rs2273171	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	63	142	0	0.473684	0	C|0.414;N|0.000	0.414	strong	STRN3,NS,carcinoma,0,1	STRN3	117	1	NM_001083893	exon11	c.A1412G	p.N471S	TTGGGATTCCATG	.	PASS	Atlas-SNP
MBTPS1	8720	hgsc.bcm.edu	37	16	84115483	84115483	+	Silent	SNP	G	G	A	rs3743631	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	40	71	0	0.56338	0	G|0.504;A|0.496	0.496	strong	MBTPS1,NS,carcinoma,0,1	MBTPS1	85	1	NM_003791	exon11	c.C1317T	p.P439P	ACTGGCGGGATTC	.	PASS	Atlas-SNP
CES1	1066	hgsc.bcm.edu	37	16	55862717	55862717	+	Silent	SNP	T	T	C	rs76828834	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	30	139	0	0.241935	0	T|0.635;C|0.365	0.365	strong	.	CES1	78	.	NM_001025195	exon2	c.A222G	p.P74P	GCTCCATGGTTCT	.	PASS	Atlas-SNP
LOXL4	84171	hgsc.bcm.edu	37	10	100018844	100018844	+	Silent	SNP	G	G	A	rs7077073	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	41	99	0	0.445652	0	G|0.595;A|0.405	0.405	strong	.	LOXL4	60	.	NM_032211	exon6	c.C843T	p.H281H	CACAGCGTGCATG	.	PASS	Atlas-SNP
BMS1	9790	hgsc.bcm.edu	37	10	43312807	43312807	+	Silent	SNP	C	C	T	rs79824313	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	49	94	0	0.5	0	C|0.667;T|0.333	0.333	strong	BMS1,NS,carcinoma,0,1	BMS1	132	1	NM_014753	exon15	c.C2445T	p.P815P	TGACCCCGACGAA	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204250	56204250	+	Missense_Mutation	SNP	A	A	C	rs3809976	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	156	184	0	0.987342	0	C|0.686;N|0.000	0.686	strong	.	ALPK2	487	.	NM_052947	exon5	c.T3169G	p.L1057V	GATCCAACTGCAC	.	PASS	Atlas-SNP
MCPH1	79648	hgsc.bcm.edu	37	8	6338306	6338306	+	Missense_Mutation	SNP	C	C	A	rs12674488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	41	98	0	0.488095	0	C|0.850;A|0.150	0.150	strong	.	MCPH1	65	.	NM_024596	exon11	c.C2045A	p.T682N	GTGAGACCACGAC	.	PASS	Atlas-SNP
KLRC2	3822	hgsc.bcm.edu	37	12	10588530	10588530	+	Missense_Mutation	SNP	C	C	G	rs75545535	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	642	252	522	0	0.392523	0	C|0.745;G|0.255	0.255	strong	KLRC2,NS,carcinoma,0,1	KLRC2	29	1	NM_002260	exon1	c.G56C	p.R19P	TGCTGCCGCTTTG	.	PASS	Atlas-SNP
SOCS5	9655	hgsc.bcm.edu	37	2	46987139	46987139	+	Silent	SNP	G	G	A	rs17771838	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	50	99	0	0.446429	0	G|0.929;A|0.071	0.071	strong	.	SOCS5	62	.	NM_144949	exon2	c.G1470A	p.A490A	TCGCGCGGTAATC	.	PASS	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	37	19	11348960	11348960	+	Missense_Mutation	SNP	G	G	A	rs12609039	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	50	105	0	0.526316	0	G|0.960;A|0.040	0.040	strong	.	DOCK6	104	.	NM_020812	exon15	c.C1664T	p.P555L	CTGTGCGGGTACA	.	PASS	Atlas-SNP
PDCD11	22984	hgsc.bcm.edu	37	10	105177645	105177645	+	Missense_Mutation	SNP	G	G	T	rs11598673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	76	148	0	0.5	0	G|0.954;T|0.046	0.046	strong	.	PDCD11	160	.	NM_014976	exon14	c.G1867T	p.A623S	GAGCCTGCAGGAC	.	PASS	Atlas-SNP
ZNF236	7776	hgsc.bcm.edu	37	18	74659494	74659494	+	Silent	SNP	G	G	A	rs9961872	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	41	83	0	0.594203	0	G|0.953;A|0.047	0.047	strong	.	ZNF236	325	.	NM_007345	exon27	c.G4794A	p.A1598A	CCCAGCGCTCCTC	.	PASS	Atlas-SNP
SORT1	6272	hgsc.bcm.edu	37	1	109897100	109897100	+	Silent	SNP	T	T	C	rs72646560	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	46	107	0	0.446602	0	T|0.955;C|0.045	0.045	strong	.	SORT1	48	.	NM_002959	exon5	c.A597G	p.R199R	TGATGATCTAAAG	.	PASS	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	37	1	86904588	86904588	+	Silent	SNP	C	C	T	rs11161830	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	22	79	0	0.285714	0	C|0.892;T|0.108	0.108	strong	.	CLCA2	102	.	NM_006536	exon7	c.C1002T	p.A334A	ACAAGCCGCAGAA	.	PASS	Atlas-SNP
LARP1B	55132	hgsc.bcm.edu	37	4	129043204	129043204	+	Missense_Mutation	SNP	C	C	G	rs12508837	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	193	195	0	0.994845	0	C|0.422;G|0.578	0.578	strong	.	LARP1B	120	.	NM_178043	exon11	c.C1385G	p.P462R	AACATCCTGGAGG	.	PASS	Atlas-SNP
DHRS3	9249	hgsc.bcm.edu	37	1	12640650	12640650	+	Silent	SNP	C	C	T	rs11540058	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	53	178	0	0.353333	0	C|0.868;T|0.132	0.132	strong	.	DHRS3	18	.	NM_004753	exon2	c.G240A	p.T80T	CTCCTCCGTCGTC	.	PASS	Atlas-SNP
JAKMIP3	282973	hgsc.bcm.edu	37	10	133954011	133954011	+	Silent	SNP	C	C	T	rs2818387	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	150	160	0	0.993378	0	C|0.497;T|0.503	0.503	strong	.	JAKMIP3	69	.	NM_001105521	exon9	c.C1401T	p.D467D	ATCCGACGGCTCC	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56247567	56247567	+	Silent	SNP	A	A	G	rs9956630	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	300	299	323	0	0.996667	0	A|0.515;G|0.485	0.485	strong	.	ALPK2	487	.	NM_052947	exon4	c.T441C	p.Y147Y	TTCCTTATAAGGA	.	PASS	Atlas-SNP
HSPA6	3310	hgsc.bcm.edu	37	1	161496134	161496134	+	Missense_Mutation	SNP	C	C	G	rs753856	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	305	113	306	1	0.370492	0.00326797	C|0.914;G|0.086	0.086	strong	.	HSPA6	53	.	NM_002155	exon1	c.C1686G	p.D562E	TAGGGACAAGATT	.	PASS	Atlas-SNP
CKAP2L	150468	hgsc.bcm.edu	37	2	113498566	113498566	+	Missense_Mutation	SNP	A	A	G	rs3811040	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	68	161	0	0.43038	0	A|0.592;G|0.408	0.408	strong	.	CKAP2L	54	.	NM_152515	exon8	c.T1841C	p.L614S	GCAACTAAAGAGT	.	PASS	Atlas-SNP
BEST1	7439	hgsc.bcm.edu	37	11	61730183	61730183	+	Silent	SNP	C	C	T	rs1800008	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	40	89	0	0.47619	0	C|0.846;T|0.154	0.154	strong	BEST1_ENST00000449131,NS,carcinoma,+1,2	BEST1	85	2	NM_004183	exon10	c.C1557T	p.S519S	AGAGAGCGATGGG	.	PASS	Atlas-SNP
IGSF10	285313	hgsc.bcm.edu	37	3	151166058	151166058	+	Missense_Mutation	SNP	G	G	A	rs17204557	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	354	159	327	0	0.449153	0	G|0.971;A|0.029	0.029	strong	.	IGSF10	279	.	NM_178822	exon4	c.C1711T	p.P571S	CCAAAGGTTCTAC	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50744753	50744753	+	Silent	SNP	T	T	C	rs10506292	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	56	100	0	0.504505	0	T|0.351;C|0.649	0.649	strong	FAM186A_ENST00000327337,NS,carcinoma,0,1	FAM186A	181	1	NM_001145475	exon4	c.A5862G	p.K1954K	CAATCTTTTCTTA	.	PASS	Atlas-SNP
BFSP1	631	hgsc.bcm.edu	37	20	17477592	17477592	+	Missense_Mutation	SNP	C	C	T	rs6080719	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	52	64	0	1	0	C|0.784;T|0.216	0.216	strong	.	BFSP1	55	.	NM_001195	exon7	c.G1033A	p.G345S	TCCCACCGGATCC	.	PASS	Atlas-SNP
CASC5	57082	hgsc.bcm.edu	37	15	40916237	40916237	+	Missense_Mutation	SNP	A	A	G	rs17747633	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	32	69	0	0.380952	0	A|0.758;G|0.242	0.242	strong	CASC5_ENST00000346991,colon,carcinoma,0,3	CASC5	269	3	NM_170589	exon11	c.A3853G	p.K1285E	ATAGGGAAAGTTG	.	PASS	Atlas-SNP
ABCF3	55324	hgsc.bcm.edu	37	3	183908982	183908982	+	Missense_Mutation	SNP	C	C	T	rs11706273	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	132	218	1	0.532258	0.00458716	C|0.968;T|0.032	0.032	strong	.	ABCF3	72	.	NM_018358	exon16	c.C1508T	p.P503L	ACGATCCGAAGCA	.	PASS	Atlas-SNP
EPHA2	1969	hgsc.bcm.edu	37	1	16475123	16475123	+	Silent	SNP	C	C	T	rs6678616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	20	42	0	0.377358	0	C|0.740;T|0.260	0.260	strong	.	EPHA2	102	.	NM_004431	exon3	c.G573A	p.L191L	GGAGAGCAGCGCC	.	PASS	Atlas-SNP
VWA5B1	127731	hgsc.bcm.edu	37	1	20640906	20640906	+	Silent	SNP	C	C	T	rs61741263	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	54	136	0	0.409091	0	C|0.987;T|0.013	0.013	strong	.	VWA5B1	44	.	NM_001039500	exon4	c.C384T	p.F128F	CCTGTTCGTGGCC	.	PASS	Atlas-SNP
PEBP4	157310	hgsc.bcm.edu	37	8	22570901	22570901	+	Silent	SNP	C	C	T	rs3087803	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	67	152	0	0.496296	0	C|0.888;T|0.112	0.112	strong	PEBP4,NS,adenocarcinoma,-1,1	PEBP4	23	1	NM_144962	exon7	c.G666A	p.A222A	TATCTCCGCCTGG	.	PASS	Atlas-SNP
L3MBTL4	91133	hgsc.bcm.edu	37	18	6301903	6301903	+	Silent	SNP	G	G	A	rs74645110	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	62	193	0	0.397436	0	G|0.981;A|0.019	0.019	strong	.	L3MBTL4	87	.	NM_173464	exon4	c.C126T	p.H42H	ATTACCGTGACTC	.	PASS	Atlas-SNP
KRT5	3852	hgsc.bcm.edu	37	12	52912768	52912768	+	Silent	SNP	C	C	T	rs1132948	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	62	192	0	0.373494	0	T|0.147;C|0.853	0.147	strong	.	KRT5	88	.	NM_000424	exon2	c.G732A	p.L244L	GTTTCTCAGCTCT	.	PASS	Atlas-SNP
CELF5	60680	hgsc.bcm.edu	37	19	3224896	3224896	+	Silent	SNP	G	G	C	rs17852497	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	82	161	2	0.384977	0.0124224	G|0.815;C|0.185	0.185	strong	CELF5,NS,carcinoma,0,1	CELF5	32	1	NM_021938	exon1	c.G159C	p.P53P	GATCCCGCGGCAC	.	scavenged	Atlas-SNP
C12orf60	144608	hgsc.bcm.edu	37	12	14976063	14976063	+	Missense_Mutation	SNP	A	A	G	rs7304054	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	76	111	0	0.558824	0	A|0.819;G|0.181	0.181	strong	.	C12orf60	31	.	NM_175874	exon2	c.A194G	p.K65R	TGCTCAAAATTTT	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14859356	14859356	+	Silent	SNP	T	T	C	rs10961757	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	47	147	0	0.484536	0	T|0.752;C|0.248	0.248	strong	.	FREM1	261	.	NM_144966	exon5	c.A456G	p.Q152Q	AATCGCTTGGGAC	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234301	45234301	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	2	53	1	0.031746	0.0188679	.	.	none	CDC27_ENST00000531206,NS,carcinoma,+1,10	CDC27	337	10	NM_001114091	exon7	c.G820T	p.A274S	TAAGAGCTGCTGG	.	scavenged	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2835863	2835863	+	Missense_Mutation	SNP	G	G	T	rs78034736	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	59	126	0	0.487603	0	G|0.920;T|0.080	0.080	strong	.	ARSD	47	.	NM_001669	exon5	c.C845A	p.A282D	GAAACAGCTTCCT	.	PASS	Atlas-SNP
SMC6	79677	hgsc.bcm.edu	37	2	17884495	17884495	+	Missense_Mutation	SNP	C	C	T	rs1065381	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	88	100	0	0.967033	0	C|0.738;T|0.262	0.262	strong	.	SMC6	102	.	NM_001142286	exon19	c.G2071A	p.A691T	CAAGGGCAGATAA	.	PASS	Atlas-SNP
NPHS1	4868	hgsc.bcm.edu	37	19	36322270	36322270	+	Silent	SNP	C	C	T	rs2071327	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	96	83	0	1	0	C|0.682;T|0.318	0.318	strong	.	NPHS1	165	.	NM_004646	exon26	c.G3315A	p.S1105S	CTCTTCCGACCTT	.	PASS	Atlas-SNP
SLC1A7	6512	hgsc.bcm.edu	37	1	53553754	53553754	+	Missense_Mutation	SNP	T	T	C	rs1288401	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	277	275	352	0	0.99278	0	T|0.467;C|0.533	0.533	strong	SLC1A7,NS,carcinoma,-1,2	SLC1A7	65	2	NM_006671	exon11	c.A1610G	p.Q537R	TCATCCTGCTCCA	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21496533	21496533	+	Silent	SNP	C	C	T	rs61751706	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	33	103	0	0.5	0	C|0.995;T|0.005	0.005	strong	.	LAMA3	397	.	NM_198129	exon60	c.C7797T	p.D2599D	GTCAGACAAAAAT	.	PASS	Atlas-SNP
PDE4C	5143	hgsc.bcm.edu	37	19	18333062	18333062	+	Missense_Mutation	SNP	C	C	T	rs146818532	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	46	79	0	0.494624	0	C|0.999;T|0.001	0.001	strong	.	PDE4C	80	.	NM_000923	exon3	c.G314A	p.R105Q	ATAATCCGGCCCA	.	PASS	Atlas-SNP
ZNF419	79744	hgsc.bcm.edu	37	19	58003580	58003580	+	Splice_Site	SNP	A	A	G	rs2074071	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	132	283	0	0.461538	0	A|0.324;G|0.676	0.676	strong	.	ZNF419	134	.	NM_024691	exon4	c.298+1A>G	.	CGAGAGATAGTTG	.	PASS	Atlas-SNP
C6orf1	221491	hgsc.bcm.edu	37	6	34214348	34214348	+	Missense_Mutation	SNP	C	C	T	rs34410712	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	43	57	0	0.605634	0	C|0.947;T|0.053	0.053	strong	.	C6orf1	6	.	NM_001008704	exon5	c.G423A	p.M141I	TCTTCCCATGAGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	54	29	0	0.981818	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
ALPK2	115701	hgsc.bcm.edu	37	18	56204671	56204671	+	Missense_Mutation	SNP	A	A	T	rs4940404	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	32	94	0	0.385542	0	A|0.514;T|0.486	0.486	strong	ALPK2_ENST00000361673,NS,carcinoma,-1,2	ALPK2	487	2	NM_052947	exon5	c.T2748A	p.N916K	GGTGGAATTCTCC	.	PASS	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	37	9	100122291	100122291	+	Missense_Mutation	SNP	T	T	C	rs3747495	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	85	169	1	0.477528	0.00591716	T|0.807;C|0.193	0.193	strong	KIAA1529,NS,carcinoma,0,1	.	.	1	NM_020893	exon26	c.T3523C	p.F1175L	CTCAGCTTCGTCC	.	scavenged	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105416918	105416918	+	Missense_Mutation	SNP	T	T	C	rs71421895	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	409	199	331	1	0.486553	0.00302115	T|0.965;C|0.035	0.035	strong	.	AHNAK2	719	.	NM_138420	exon7	c.A4870G	p.M1624V	CCTCCATGCTGGA	.	PASS	Atlas-SNP
SPEM1	374768	hgsc.bcm.edu	37	17	7324852	7324852	+	Silent	SNP	C	C	G	rs34333422	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	10	39	0	0.37037	0	C|0.922;G|0.078	0.078	strong	SPEM1,NS,carcinoma,+2,1	SPEM1	41	1	NM_199339	exon3	c.C858G	p.P286P	CTACCCCCTAGCC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228482010	228482010	+	Silent	SNP	C	C	T	rs449133	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	370	175	332	1	0.472973	0.00301205	C|0.595;T|0.405	0.405	strong	.	OBSCN	2142	.	NM_001271223	exon47	c.C12576T	p.D4192D	GCAGGACGGGTCC	.	PASS	Atlas-SNP
QRICH1	54870	hgsc.bcm.edu	37	3	49067904	49067904	+	Missense_Mutation	SNP	T	T	C	rs61729488	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	35	101	0	0.4375	0	T|0.927;C|0.073	0.073	strong	.	QRICH1	48	.	NM_198880	exon10	c.A2312G	p.N771S	CTTGCATTGGCCA	.	PASS	Atlas-SNP
ZNF737	100129842	hgsc.bcm.edu	37	19	20736639	20736639	+	Silent	SNP	C	C	T	rs111988999	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	40	65	0	0.56338	0	C|0.940;T|0.060	0.060	strong	.	ZNF737	50	.	NM_001159293	exon2	c.G6A	p.G2G	CAATGGCCCCTGA	.	PASS	Atlas-SNP
PCDHGA2	56113	hgsc.bcm.edu	37	5	140720954	140720954	+	Missense_Mutation	SNP	T	T	C	rs66823521	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	277	174	274	1	0.628159	0.00364964	T|0.910;C|0.090	0.090	strong	PCDHG_cluster,NS,carcinoma,-2,2	PCDHGA2	205	2	NM_018915	exon1	c.T2416C	p.F806L	GAAACGTTTTCTC	.	PASS	Atlas-SNP
TRIM65	201292	hgsc.bcm.edu	37	17	73887089	73887089	+	Missense_Mutation	SNP	C	C	T	rs61754864	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	28	56	0	0.509091	0	C|0.997;T|0.003	0.003	strong	.	TRIM65	23	.	NM_173547	exon6	c.G1325A	p.R442H	GGGAGGCGCTGGG	.	PASS	Atlas-SNP
PAXIP1	22976	hgsc.bcm.edu	37	7	154760369	154760369	+	Silent	SNP	A	A	G	rs935037	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	30	100	0	0.405405	0	A|0.380;G|0.620	0.620	strong	.	PAXIP1	150	.	NM_007349	exon7	c.T1542C	p.L514L	CTGGGCAAGCTGC	.	PASS	Atlas-SNP
SPINK6	404203	hgsc.bcm.edu	37	5	147593497	147593497	+	Missense_Mutation	SNP	C	C	A	rs12186491	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	123	160	0	1	0	C|0.293;A|0.707	0.707	strong	.	SPINK6	8	.	NM_205841	exon3	c.C106A	p.P36T	CAGGACCCCAAGG	.	PASS	Atlas-SNP
NTN4	59277	hgsc.bcm.edu	37	12	96131895	96131895	+	Missense_Mutation	SNP	A	A	G	rs17288108	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	55	89	0	0.55	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
MAU2	23383	hgsc.bcm.edu	37	19	19449686	19449686	+	Silent	SNP	G	G	T	rs2074090	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	70	115	0	0.503597	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
CDC27	996	hgsc.bcm.edu	37	17	45214685	45214685	+	Silent	SNP	T	T	C	rs11570543	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	12	15	0	0.428571	0	T|0.932;C|0.068	0.068	strong	CDC27_ENST00000531206,NS,carcinoma,-2,2	CDC27	337	2	NM_001114091	exon14	c.A1764G	p.E588E	ATCATGTTCCCGT	.	PASS	Atlas-SNP
UPK3BL	100134938	hgsc.bcm.edu	37	7	102279621	102279621	+	Missense_Mutation	SNP	C	C	T	rs56365279		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	884	134	846	0	0.151584	0	.	.	weak	UPK3BL,NS,carcinoma,0,4	UPK3BL	6	4	NM_001114403	exon4	c.G511A	p.E171K	GTCCTTCGTCATT	.	scavenged	Atlas-SNP
KCNJ9	3765	hgsc.bcm.edu	37	1	160057522	160057522	+	Missense_Mutation	SNP	C	C	T	rs3001040	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	7	39	0	0.162791	0	C|0.709;T|0.291	0.291	strong	.	KCNJ9	35	.	NM_004983	exon3	c.C1097T	p.A366V	AGGGGGCGGGGGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	74	134	0	0.540146	0	G|0.676;A|0.324	0.324	strong	.	.	.	.	NM_001011703	exon2	c.G135A	p.T45T	AGAAACGTCAATG	.	PASS	Atlas-SNP
C6orf118	168090	hgsc.bcm.edu	37	6	165703453	165703453	+	Silent	SNP	A	A	C	rs73022263	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	86	166	0	0.51497	0	A|0.974;C|0.026	0.026	strong	.	C6orf118	116	.	NM_144980	exon7	c.T1224G	p.A408A	TTCCAGAGCTTGT	.	PASS	Atlas-SNP
ZNF675	171392	hgsc.bcm.edu	37	19	23837145	23837145	+	Missense_Mutation	SNP	A	A	G	rs11671053	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	110	113	0	1	0	A|0.544;G|0.456	0.456	strong	.	ZNF675	88	.	NM_138330	exon4	c.T590C	p.V197A	AAATTCACCTTGG	.	PASS	Atlas-SNP
TRIM42	287015	hgsc.bcm.edu	37	3	140406947	140406947	+	Missense_Mutation	SNP	G	G	A	rs28594654	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	44	96	0	0.419048	0	G|0.527;A|0.473	0.473	strong	.	TRIM42	143	.	NM_152616	exon3	c.G1423A	p.V475M	AACTACGTGCCCT	.	PASS	Atlas-SNP
NOX4	50507	hgsc.bcm.edu	37	11	89060002	89060002	+	Silent	SNP	G	G	A	rs28517716	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	89	153	1	0.458763	0.00653595	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	.	scavenged	Atlas-SNP
MANBA	4126	hgsc.bcm.edu	37	4	103611845	103611845	+	Missense_Mutation	SNP	C	C	T	rs227368	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	159	175	0	0.987578	0	T|0.377;G|0.002;C|0.617;A|0.004	0.377	strong	.	MANBA	78	.	NM_005908	exon6	c.G757A	p.V253I	TGGCTACGATCAC	.	PASS	Atlas-SNP
RPS6KL1	83694	hgsc.bcm.edu	37	14	75388183	75388183	+	Missense_Mutation	SNP	C	C	T	rs7156590	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	74	123	0	0.560606	0	C|0.654;T|0.346	0.346	strong	.	RPS6KL1	35	.	NM_031464	exon2	c.G62A	p.R21Q	CGTGCTCGTGAGC	.	PASS	Atlas-SNP
ZFP64	55734	hgsc.bcm.edu	37	20	50769183	50769183	+	Silent	SNP	G	G	A	rs3746415	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	34	46	0	0.62963	0	G|0.839;A|0.161	0.161	strong	.	ZFP64	240	.	NM_018197	exon6	c.C1548T	p.A516A	TGCAGCGGCGGCA	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124298380	124298380	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	41	80	0	0.460674	0	.	.	none	.	DNAH10	888	.	NM_207437	exon20	c.G3347A	p.R1116K	AAATTAGAAGTAA	.	PASS	Atlas-SNP
CCZ1	51622	hgsc.bcm.edu	37	7	5965288	5965288	+	Silent	SNP	G	G	A	rs138347457	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1612	751	1437	1	0.465881	0.000695894	G|0.922;A|0.078	0.078	strong	CCZ1,NS,carcinoma,+1,1	CCZ1	21	1	NM_015622	exon15	c.G1419A	p.T473T	TGCAACGCAGTTC	.	PASS	Atlas-SNP
MAPKAP1	79109	hgsc.bcm.edu	37	9	128246786	128246786	+	Silent	SNP	G	G	A	rs2070113	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250	123	232	0	0.492	0	G|0.819;T|0.001	.	strong	.	MAPKAP1	68	.	NM_001006617	exon9	c.C1143T	p.H381H	GTAATGGTGGCTG	.	PASS	Atlas-SNP
ITGAX	3687	hgsc.bcm.edu	37	16	31384648	31384648	+	Silent	SNP	C	C	T	rs12448775	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	48	74	0	0.578313	0	C|0.967;T|0.033	0.033	strong	.	ITGAX	198	.	NM_000887	exon20	c.C2445T	p.Y815Y	CTCCTACGGAACC	.	PASS	Atlas-SNP
FDXR	2232	hgsc.bcm.edu	37	17	72860654	72860654	+	Silent	SNP	G	G	A	rs2070921	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	46	87	0	0.484211	0	G|0.979;A|0.021	0.021	strong	.	FDXR	68	.	NM_001258012	exon8	c.C879T	p.A293A	GGGCCGGGCTCCC	.	PASS	Atlas-SNP
HSD3B7	80270	hgsc.bcm.edu	37	16	30999142	30999142	+	Missense_Mutation	SNP	A	A	G	rs9938550	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	27	78	0	0.380282	0	A|0.455;G|0.545	0.545	strong	.	HSD3B7	33	.	NM_025193	exon7	c.A748G	p.T250A	CGGGCAACCCTGA	.	PASS	Atlas-SNP
THADA	63892	hgsc.bcm.edu	37	2	43797619	43797619	+	Missense_Mutation	SNP	C	C	T	rs17031056	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	86	166	0	0.554839	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
PLEC	5339	hgsc.bcm.edu	37	8	145008560	145008560	+	Silent	SNP	A	A	G	rs11783799	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	88	155	0	0.539877	0	A|0.702;G|0.298	0.298	strong	.	PLEC	1144	.	NM_201380	exon11	c.T1506C	p.D502D	CTCCACATCCAGC	.	PASS	Atlas-SNP
KRT72	140807	hgsc.bcm.edu	37	12	52981512	52981512	+	Missense_Mutation	SNP	G	G	A	rs61740861	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	222	106	194	0	0.477477	0	G|0.973;A|0.027	0.027	strong	KRT72,NS,malignant_melanoma,+1,1	KRT72	70	1	NM_001146225	exon7	c.C1213T	p.R405W	GCATCCGTGCCAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	27	32	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
BARD1	580	hgsc.bcm.edu	37	2	215632255	215632255	+	Missense_Mutation	SNP	C	C	T	rs2070094	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	104	213	0	0.525253	0	C|0.656;T|0.344	0.344	strong	.	BARD1	138	.	NM_000465	exon6	c.G1519A	p.V507M	TATCCACATGCCC	.	PASS	Atlas-SNP
DCAF8L2	347442	hgsc.bcm.edu	37	X	27766045	27766045	+	Missense_Mutation	SNP	A	A	G	rs5926895	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	112	241	0	0.973913	0	A|0.784;0|0.046	.	strong	.	DCAF8L2	79	.	NM_001136533	exon1	c.A1033G	p.T345A	GTCTTCACCATTG	.	PASS	Atlas-SNP
ZNF780B	163131	hgsc.bcm.edu	37	19	40541066	40541066	+	Missense_Mutation	SNP	C	C	T	rs61730564	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	57	81	0	0.587629	0	C|0.995;T|0.005	0.005	strong	.	ZNF780B	143	.	NM_001005851	exon5	c.G1700A	p.R567H	CCACGACGAAAGA	.	PASS	Atlas-SNP
GRHPR	9380	hgsc.bcm.edu	37	9	37429814	37429814	+	Silent	SNP	A	A	G	rs309458	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	49	51	0	1	0	A|0.143;G|0.857	0.857	strong	.	GRHPR	35	.	NM_012203	exon6	c.A579G	p.A193A	AGCAGCAGAATTC	.	PASS	Atlas-SNP
DOCK1	1793	hgsc.bcm.edu	37	10	129216658	129216658	+	Silent	SNP	T	T	C	rs2229600	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	30	61	0	0.461538	0	A|0.000;C|0.325;G|0.000;T|0.674	0.325	strong	.	DOCK1	188	.	NM_001380	exon45	c.T4482C	p.I1494I	TGCCATTGAGACC	.	PASS	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166151	41166151	+	Silent	SNP	A	A	G	rs61998254	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	41	71	0	0.5	0	A|0.947;G|0.053	0.053	strong	.	TREML2	41	.	NM_024807	exon2	c.T72C	p.S24S	GTATACACTGTCA	.	PASS	Atlas-SNP
HCRTR1	3061	hgsc.bcm.edu	37	1	32084904	32084904	+	Silent	SNP	C	C	T	rs1056526	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	73	150	0	0.623932	0	C|0.612;T|0.388	0.388	strong	.	HCRTR1	20	.	NM_001525	exon3	c.C111T	p.R37R	GTGGCGCGATTAT	.	PASS	Atlas-SNP
TEC	7006	hgsc.bcm.edu	37	4	48147309	48147309	+	Silent	SNP	T	T	C	rs17574371	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	105	124	0	0.990566	0	T|0.704;C|0.296	0.296	strong	.	TEC	81	.	NM_003215	exon14	c.A1257G	p.K419K	TGTCAGTTTCCTG	.	PASS	Atlas-SNP
GRM6	2916	hgsc.bcm.edu	37	5	178416063	178416063	+	Silent	SNP	G	G	A	rs2645339	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	162	194	1	0.993865	0.00515464	G|0.502;A|0.498	0.498	strong	GRM6,NS,adenoma,0,1	GRM6	149	1	NM_000843	exon6	c.C1227T	p.Y409Y	AATGGCGTACACC	.	PASS	Atlas-SNP
EHMT1	79813	hgsc.bcm.edu	37	9	140611436	140611436	+	Silent	SNP	T	T	C	rs3812497	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	27	54	0	0.465517	0	T|0.785;C|0.215	0.215	strong	.	EHMT1	196	.	NM_001145527	exon3	c.T444C	p.P148P	GCTGCCTGGCCAT	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70164334	70164334	+	Missense_Mutation	SNP	A	A	G	rs10852462	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	79	108	0	0.436464	0	A|0.665;G|0.335	0.335	strong	PDPR,NS,carcinoma,0,1	PDPR	66	1	NM_017990	exon7	c.A616G	p.I206V	GTTCAGATCTATG	.	PASS	Atlas-SNP
ARHGEF10L	55160	hgsc.bcm.edu	37	1	17914122	17914122	+	Missense_Mutation	SNP	G	G	A	rs35497285	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	21	45	0	0.4375	0	G|0.929;A|0.071	0.071	strong	.	ARHGEF10L	219	.	NM_018125	exon3	c.G205A	p.D69N	CACTTGGACTCCA	.	PASS	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5485367	5485367	+	Missense_Mutation	SNP	A	A	T	rs12150220	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	93	100	0	0.958763	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
TNKS	8658	hgsc.bcm.edu	37	8	9414049	9414049	+	Silent	SNP	G	G	A	rs33945943	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	41	57	0	0.482353	0	A|0.233;C|0.000;G|0.767	0.233	strong	.	TNKS	198	.	NM_003747	exon1	c.G600A	p.R200R	AAAGAGGCTGGTG	.	PASS	Atlas-SNP
TSSK2	23617	hgsc.bcm.edu	37	22	19119686	19119686	+	Silent	SNP	C	C	T	rs1052756	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	40	93	0	0.421053	0	C|0.851;A|0.001	.	strong	.	TSSK2	29	.	NM_053006	exon1	c.C774T	p.S258S	CGTCAGCCAGCGG	.	PASS	Atlas-SNP
LMBRD2	92255	hgsc.bcm.edu	37	5	36143392	36143392	+	Silent	SNP	C	C	T	rs267766	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	269	233	2	0.99262	0.00858369	C|0.628;T|0.372	0.372	strong	LMBRD2,NS,carcinoma,0,1	LMBRD2	89	1	NM_001007527	exon2	c.G60A	p.L20L	ATGAAGCAGAAAT	.	scavenged	Atlas-SNP
SH3BP2	6452	hgsc.bcm.edu	37	4	2828969	2828969	+	Silent	SNP	G	G	A	rs145235325	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	30	55	0	0.517241	0	G|0.999;A|0.001	0.001	strong	.	SH3BP2	43	.	NM_001145856	exon6	c.G612A	p.S204S	CAGCTCGGACACA	.	PASS	Atlas-SNP
SLC25A23	79085	hgsc.bcm.edu	37	19	6452423	6452423	+	Missense_Mutation	SNP	C	C	T	rs61729423	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	68	107	0	0.515152	0	C|0.990;T|0.010	0.010	strong	.	SLC25A23	43	.	NM_024103	exon8	c.G971A	p.R324H	AGGATACGCCTGG	.	PASS	Atlas-SNP
SHISA9	729993	hgsc.bcm.edu	37	16	13297348	13297348	+	Silent	SNP	C	C	T	rs12444395	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	31	63	0	0.442857	0	C|0.980;T|0.020	0.020	strong	.	SHISA9	33	.	NM_001145204	exon3	c.C789T	p.P263P	CAACCCCTATGAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	69	216	1	0.492857	0.00462963	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
HAPLN3	145864	hgsc.bcm.edu	37	15	89430506	89430506	+	Silent	SNP	C	C	T	rs3743395	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	72	151	0	0.444444	0	C|0.770;T|0.230	0.230	strong	.	HAPLN3	43	.	NM_178232	exon2	c.G24A	p.P8P	GAGCAACGGGACC	.	PASS	Atlas-SNP
TOPORS	10210	hgsc.bcm.edu	37	9	32541532	32541532	+	Silent	SNP	A	A	G	rs12348918	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	57	150	0	0.38255	0	A|0.832;G|0.168	0.168	strong	TOPORS_ENST00000360538,NS,carcinoma,0,2	TOPORS	127	2	NM_005802	exon3	c.T2991C	p.D997D	TCTTACATCGAGA	.	PASS	Atlas-SNP
MTA1	9112	hgsc.bcm.edu	37	14	105930406	105930406	+	Missense_Mutation	SNP	G	G	A	rs4983413	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	67	206	0	0.449664	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
PCDHAC1	56135	hgsc.bcm.edu	37	5	140307485	140307485	+	Silent	SNP	T	T	C	rs147219331	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	61	185	0	0.314433	0	T|0.999;C|0.001	0.001	strong	.	PCDHAC1	141	.	NM_031882	exon1	c.T1008C	p.H336H	CGATCATGCCCCC	.	PASS	Atlas-SNP
CCDC103	388389	hgsc.bcm.edu	37	17	42979026	42979026	+	Splice_Site	SNP	T	T	C	rs74349463	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	58	133	0	0.508772	0	T|0.873;C|0.127	0.127	strong	.	CCDC103	15	.	NM_001258399	exon3	c.280+2T>C	.	GGTAGGTGAGGCC	.	PASS	Atlas-SNP
DAG1	1605	hgsc.bcm.edu	37	3	49570200	49570200	+	Silent	SNP	C	C	T	rs1801143	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	63	94	0	0.453237	0	C|0.722;T|0.278	0.278	strong	.	DAG1	60	.	NM_001177642	exon4	c.C2256T	p.H752H	CCTGCACACAGTC	.	PASS	Atlas-SNP
ANKRD33	341405	hgsc.bcm.edu	37	12	52284500	52284500	+	Missense_Mutation	SNP	A	A	G	rs34494292	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	6	33	0	0.26087	0	A|0.845;G|0.155	0.155	strong	.	ANKRD33	33	.	NM_182608	exon5	c.A770G	p.Q257R	TTAGCCAGCACTA	.	PASS	Atlas-SNP
ARRDC4	91947	hgsc.bcm.edu	37	15	98513845	98513845	+	Missense_Mutation	SNP	T	T	C	rs2130882	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	50	114	0	0.420168	0	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	.	PASS	Atlas-SNP
SSTR4	6754	hgsc.bcm.edu	37	20	23017017	23017017	+	Silent	SNP	T	T	C	rs2567609	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	71	164	0	0.452229	0	T|0.514;C|0.486	0.486	strong	SSTR4,colon,carcinoma,0,2	SSTR4	83	2	NM_001052	exon1	c.T897C	p.L299L	TATCCTTAGCTAT	.	PASS	Atlas-SNP
CLIP1	6249	hgsc.bcm.edu	37	12	122812503	122812503	+	Missense_Mutation	SNP	G	G	C	rs1129167	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	51	145	0	0.447368	0	G|0.545;C|0.455	0.455	strong	.	CLIP1	126	.	NM_001247997	exon17	c.C3240G	p.D1080E	GGCTTTGTCGGCT	.	PASS	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	37	1	243329211	243329211	+	Missense_Mutation	SNP	G	G	T	rs2728430		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	298	30	233	0	0.100671	0	.	.	weak	CEP170,NS,carcinoma,-1,1	CEP170	153	1	NM_014812	exon13	c.C2051A	p.T684K	ACCTGTGTAGGTG	.	scavenged	Atlas-SNP
CLTC	1213	hgsc.bcm.edu	37	17	57759019	57759019	+	Silent	SNP	G	G	A	rs77062632	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	54	126	0	0.388489	0	G|0.978;A|0.022	0.022	strong	CLTC_ENST00000269122,caecum,carcinoma,+2,1	CLTC	124	1	NM_004859	exon21	c.G3261A	p.E1087E	AATTGAGCATATT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	63	176	0	0.403846	0	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	.	PASS	Atlas-SNP
WDFY1	57590	hgsc.bcm.edu	37	2	224765956	224765956	+	Silent	SNP	C	C	T	rs2272317	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	34	80	0	0.472222	0	C|0.938;T|0.062	0.062	strong	.	WDFY1	46	.	NM_020830	exon5	c.G429A	p.T143T	GCTCCGCGTGCAC	.	PASS	Atlas-SNP
OVCH2	341277	hgsc.bcm.edu	37	11	7727872	7727872	+	Missense_Mutation	SNP	T	T	C	rs12289558	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	84	68	0	1	0	T|0.837;C|0.163	0.163	strong	OVCH2,colon,carcinoma,0,1	OVCH2	47	1	NM_198185	exon1	c.A70G	p.T24A	AAAGAGTTGCAGA	.	PASS	Atlas-SNP
AIF1	199	hgsc.bcm.edu	37	6	31583312	31583312	+	Missense_Mutation	SNP	G	G	A	rs2736182	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	64	80	0	0.581818	0	G|0.914;A|0.086	0.086	strong	.	AIF1	13	.	NM_001623	exon2	c.G40A	p.G14R	GCTTTCGGACTGC	.	PASS	Atlas-SNP
CHRNA5	1138	hgsc.bcm.edu	37	15	78882925	78882925	+	Missense_Mutation	SNP	G	G	A	rs16969968	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	57	93	0	0.508929	0	G|0.771;A|0.229	0.229	strong	.	CHRNA5	48	.	NM_000745	exon5	c.G1192A	p.D398N	GCGCTCGATTCTA	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70190401	70190401	+	Silent	SNP	C	C	T	rs6499302	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	40	86	0	0.204082	0	C|0.645;T|0.355	0.355	strong	.	PDPR	66	.	NM_017990	exon19	c.C2259T	p.D753D	TCGCGACGCCCTC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	18	35	0	0.5	0	A|0.802;T|0.198	0.198	strong	.	CDCA2	78	.	NM_152562	exon15	c.A2652T	p.R884S	GAGGAGAAATAGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	62	120	0	0.433566	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
OR2V1	26693	hgsc.bcm.edu	37	5	180551660	180551660	+	Silent	SNP	G	G	T	rs141508488	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	59	105	0	0.602041	0	G|0.994;T|0.006	0.006	strong	.	OR2V1	20	.	NM_001258283	exon1	c.C645A	p.I215I	GGCCATGATGATG	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220354108	220354108	+	Missense_Mutation	SNP	A	A	G	rs55760516	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	57	138	0	0.467213	0	A|0.648;G|0.352	0.352	strong	.	SPEG	272	.	NM_005876	exon36	c.A8368G	p.R2790G	ACCTCAAGGCCAG	.	PASS	Atlas-SNP
C9orf62	157927	hgsc.bcm.edu	37	9	138236031	138236031	+	Silent	SNP	A	A	G	rs914398	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	18	45	0	0.409091	0	A|0.488;G|0.512	0.512	strong	.	C9orf62	1	.	NM_173520	exon2	c.A237G	p.P79P	ACGCCCAGTCCTG	.	PASS	Atlas-SNP
ZNF211	10520	hgsc.bcm.edu	37	19	58152795	58152795	+	Missense_Mutation	SNP	C	C	T	rs11879465	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	38	66	0	0.5	0	C|0.792;T|0.208	0.208	strong	.	ZNF211	78	.	NM_001265597	exon5	c.C1136T	p.A379V	CTTATGCGTGCCC	.	PASS	Atlas-SNP
LAMB2	3913	hgsc.bcm.edu	37	3	49168511	49168511	+	Missense_Mutation	SNP	G	G	A	rs200316162	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	3	134	0	0.02	0	.	.	weak	LAMB2,colon,carcinoma,0,1	LAMB2	156	1	NM_002292	exon7	c.C787T	p.R263W	CCCTCCGTGGGTC	.	scavenged	Atlas-SNP
OR1A1	8383	hgsc.bcm.edu	37	17	3119673	3119673	+	Silent	SNP	A	A	G	rs769426	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	102	164	0	0.545455	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
TG	7038	hgsc.bcm.edu	37	8	133975283	133975283	+	Missense_Mutation	SNP	G	G	A	rs2069561	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	97	184	0	0.455399	0	G|0.642;A|0.358	0.358	strong	TG,NS,carcinoma,0,1	TG	416	1	NM_003235	exon29	c.G5512A	p.D1838N	AGAAAAGACACAG	.	PASS	Atlas-SNP
GRIN3B	116444	hgsc.bcm.edu	37	19	1004710	1004710	+	Missense_Mutation	SNP	C	C	T	rs4807399	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	16	11	0	1	0	C|0.586;T|0.414	0.414	strong	.	GRIN3B	46	.	NM_138690	exon3	c.C1210T	p.R404W	TCTGCACGGCCCC	.	PASS	Atlas-SNP
ARRDC2	27106	hgsc.bcm.edu	37	19	18121418	18121418	+	Silent	SNP	G	G	A	rs79985971	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	25	53	0	0.480769	0	G|0.988;A|0.012	0.012	strong	.	ARRDC2	60	.	NM_015683	exon7	c.G1050A	p.E350E	CACTGAGGAGGCA	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4308362	4308362	+	Missense_Mutation	SNP	C	C	T	rs8514	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	74	165	0	0.430233	0	C|0.819;T|0.181	0.181	strong	.	SDK1	361	.	NM_001079653	exon20	c.C2020T	p.R674C	GCTCCCCGTGGGT	.	PASS	Atlas-SNP
GPR132	29933	hgsc.bcm.edu	37	14	105518336	105518336	+	Silent	SNP	G	G	T	rs3803322	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	17	53	0	0.320755	0	G|0.922;T|0.078	0.078	strong	.	GPR132	40	.	NM_013345	exon4	c.C138A	p.V46V	CACCACGACCAGG	.	PASS	Atlas-SNP
KIAA1217	56243	hgsc.bcm.edu	37	10	24832885	24832885	+	Silent	SNP	C	C	T	rs3748218	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	29	55	0	0.483333	0	C|0.774;T|0.226	0.226	strong	.	KIAA1217	235	.	NM_019590	exon19	c.C4686T	p.T1562T	CGCGACCGATGAC	.	PASS	Atlas-SNP
ST6GALNAC3	256435	hgsc.bcm.edu	37	1	77093180	77093180	+	Missense_Mutation	SNP	C	C	A	rs1184626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	118	126	0	0.975207	0	C|0.543;A|0.457	0.457	strong	.	ST6GALNAC3	71	.	NM_152996	exon4	c.C667A	p.L223I	ACCTTCCTTCTGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513493	195513493	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	935	75	689	7	0.0802139	0.0101597	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.G4958T	p.S1653I	GAAGGGCTGGTGA	.	scavenged	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51924774	51924774	+	Silent	SNP	A	A	G	rs1896976	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	67	48	0	1	0	A|0.039;G|0.961	0.961	strong	.	PKHD1	927	.	NM_170724	exon15	c.T1185C	p.D395D	TTGGCTATCTGCC	.	PASS	Atlas-SNP
PNPLA7	375775	hgsc.bcm.edu	37	9	140356422	140356422	+	Silent	SNP	G	G	C	rs28452008	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	23	60	0	0.479167	0	G|0.620;C|0.380	0.380	strong	PNPLA7,NS,carcinoma,0,1	PNPLA7	124	1	NM_001098537	exon32	c.C3717G	p.L1239L	GTCGCGGAGCATC	.	PASS	Atlas-SNP
ACTL8	81569	hgsc.bcm.edu	37	1	18149566	18149566	+	Silent	SNP	C	C	A	rs2296035	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	25	59	0	0.490196	0	C|0.540;A|0.460	0.460	strong	.	ACTL8	58	.	NM_030812	exon2	c.C63A	p.G21G	GGCCGGCTGGAAT	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195453249	195453249	+	Missense_Mutation	SNP	T	T	C	rs3828407	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	21	193	0	0.198113	0	T|0.982;C|0.018	0.018	strong	.	MUC20	84	.	NM_152673	exon3	c.T1262C	p.M421T	CGACCATGGACAT	.	PASS	Atlas-SNP
CYP39A1	51302	hgsc.bcm.edu	37	6	46620252	46620252	+	Missense_Mutation	SNP	C	C	G	rs12192544	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	70	106	0	0.619469	0	C|0.846;G|0.154	0.154	strong	.	CYP39A1	41	.	NM_016593	exon1	c.G68C	p.R23P	TTCTTCCGCTGAA	.	PASS	Atlas-SNP
RARS	5917	hgsc.bcm.edu	37	5	167933060	167933060	+	Silent	SNP	A	A	G	rs2305733	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	151	189	0	1	0	A|0.875;G|0.125	0.125	strong	.	RARS	58	.	NM_002887	exon10	c.A1092G	p.V364V	GATTGTATTTGTC	.	PASS	Atlas-SNP
MAP7D1	55700	hgsc.bcm.edu	37	1	36636774	36636774	+	Silent	SNP	G	G	A	rs139650826	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	74	112	0	0.74	0	G|0.992;A|0.008	0.008	strong	.	MAP7D1	62	.	NM_018067	exon2	c.G249A	p.Q83Q	CCCGCAGGAAGAG	.	PASS	Atlas-SNP
TSPYL6	388951	hgsc.bcm.edu	37	2	54482989	54482989	+	Silent	SNP	C	C	T	rs6740641	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	41	95	0	0.525641	0	C|0.869;G|0.001;T|0.130	0.130	strong	TSPYL6,NS,carcinoma,0,1	TSPYL6	54	1	NM_001003937	exon1	c.G300A	p.A100A	AGAGGCCGCTTCT	.	PASS	Atlas-SNP
MADD	8567	hgsc.bcm.edu	37	11	47303275	47303275	+	Silent	SNP	T	T	C	rs326217	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	46	109	0	0.414414	0	T|0.698;C|0.302	0.302	strong	.	MADD	172	.	NM_130474	exon8	c.T1440C	p.N480N	TGGCAATGATGTG	.	PASS	Atlas-SNP
RNH1	6050	hgsc.bcm.edu	37	11	494942	494942	+	Silent	SNP	G	G	C	rs7983	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	76	217	0	0.460606	0	G|0.627;C|0.373	0.373	strong	.	RNH1	24	.	NM_203384	exon9	c.C1239G	p.A413A	GATGCCGGCGTCC	.	PASS	Atlas-SNP
SMARCC2	6601	hgsc.bcm.edu	37	12	56558483	56558483	+	Missense_Mutation	SNP	G	G	A	rs76701112	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	42	101	0	0.411765	0	G|0.995;A|0.005	0.005	strong	SMARCC2_ENST00000267064,NS,carcinoma,+1,2	SMARCC2	212	2	NM_139067	exon28	c.C3265T	p.P1089S	TTGAGGGAGGAGT	.	PASS	Atlas-SNP
DCLK1	9201	hgsc.bcm.edu	37	13	36402426	36402426	+	Silent	SNP	A	A	G	rs2296645	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	41	32	0	1	0	A|0.650;G|0.350	0.350	strong	DCLK1_ENST00000255448,NS,carcinoma,0,1	DCLK1	350	1	NM_004734	exon9	c.T1248C	p.Y416Y	CAGAGCATACTCT	.	PASS	Atlas-SNP
ZNF436	80818	hgsc.bcm.edu	37	1	23688933	23688933	+	Silent	SNP	A	A	G	rs2849028	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	133	187	0	1	0	A|0.444;G|0.556	0.556	strong	.	ZNF436	49	.	NM_001077195	exon4	c.T942C	p.N314N	ACTGAAATTCTTC	.	PASS	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85435805	85435805	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	74	131	0	0.477419	0	.	.	none	.	SYTL2	231	.	NM_206927	exon1	c.A1695G	p.T565T	CTCCTCTGTACTA	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2836138	2836138	+	Silent	SNP	G	G	A	rs73632974	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	68	151	0	0.475524	0	G|0.925;A|0.075	0.075	strong	.	ARSD	47	.	NM_001669	exon5	c.C570T	p.P190P	CACTTCGGGGGGC	.	PASS	Atlas-SNP
DNASE1L3	1776	hgsc.bcm.edu	37	3	58191242	58191242	+	Silent	SNP	C	C	G	rs17058970	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	84	136	0	0.506024	0	C|0.863;G|0.137	0.137	strong	.	DNASE1L3	36	.	NM_004944	exon3	c.G276C	p.R92R	TCCAAGCCGAGAG	.	PASS	Atlas-SNP
SLC2A14	144195	hgsc.bcm.edu	37	12	7966958	7966958	+	Missense_Mutation	SNP	C	C	T	rs10845981	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	147	239	0	0.738693	0	C|0.760;T|0.240	0.240	strong	SLC2A14,NS,carcinoma,0,1	SLC2A14	78	1	NM_153449	exon12	c.G1517A	p.G506E	TTCATCCCCATGA	.	PASS	Atlas-SNP
MCC	4163	hgsc.bcm.edu	37	5	112399791	112399791	+	Silent	SNP	G	G	A	rs2227947	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	145	146	0	1	0	G|0.494;A|0.506	0.506	strong	.	MCC	234	.	NM_001085377	exon14	c.C2103T	p.N701N	GGCAGCGTTCTCA	.	PASS	Atlas-SNP
STARD13	90627	hgsc.bcm.edu	37	13	33703666	33703666	+	Missense_Mutation	SNP	C	C	G	rs34425674	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	68	132	0	0.409639	0	C|0.981;G|0.019	0.019	strong	STARD13,NS,carcinoma,0,1	STARD13	100	1	NM_178006	exon5	c.G1148C	p.R383P	TGCATACGGCTTT	.	PASS	Atlas-SNP
PRB4	5545	hgsc.bcm.edu	37	12	11461802	11461802	+	Nonsense_Mutation	SNP	G	G	A	rs12829245	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	121	221	0	0.620513	0	G|0.900;A|0.100	0.100	strong	.	PRB4	59	.	NM_001261399	exon3	c.C115T	p.R39X	GGCGTCGTCCTTC	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97851069	97851069	+	Silent	SNP	A	A	G	rs62154801	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	124	119	0	1	0	A|0.558;G|0.442	0.442	strong	.	ANKRD36	170	.	NM_001164315	exon29	c.A1956G	p.Q652Q	GAAACAACCAGCC	.	PASS	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	37	3	57419497	57419497	+	Missense_Mutation	SNP	C	C	T	rs6773904	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	57	106	0	0.558824	0	C|0.587;T|0.413	0.413	strong	.	DNAH12	182	.	NM_178504	exon31	c.G4645A	p.D1549N	GCGTATCCGCCAG	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1389005	1389005	+	Missense_Mutation	SNP	T	T	C	rs71614970	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	10	239	1	0.5	0.0041841	C|1.000;|0.000	1.000	weak	CRIPAK,rectum,NS,0,1	CRIPAK	185	1	NM_175918	exon1	c.T706C	p.C236R	TGCCGATGCGGAG	.	PASS	Atlas-SNP
OR2T3	343173	hgsc.bcm.edu	37	1	248637362	248637362	+	Silent	SNP	C	C	T	rs77686526	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	543	175	615	0	0.322284	0	C|0.702;T|0.298	0.298	strong	.	OR2T3	79	.	NM_001005495	exon1	c.C711T	p.A237A	TGCCGCCGGCCAC	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121413239	121413239	+	Missense_Mutation	SNP	T	T	G	rs75383249	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	54	130	0	0.514286	0	T|0.997;G|0.003	0.003	strong	.	GOLGB1	319	.	NM_001256486	exon13	c.A6131C	p.E2044A	GTTCTCTCCAGAG	.	PASS	Atlas-SNP
PHRF1	57661	hgsc.bcm.edu	37	11	607680	607680	+	Missense_Mutation	SNP	G	G	A	rs113889171	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	10	6	21	0	0.6	0	G|0.996;A|0.004	0.004	strong	.	PHRF1	188	.	NM_020901	exon14	c.G2221A	p.G741R	GAGCCCGGGGTGC	.	PASS	Atlas-SNP
ACP6	51205	hgsc.bcm.edu	37	1	147119273	147119273	+	Silent	SNP	G	G	A	rs1344	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235	84	167	0	0.357447	0	G|0.493;A|0.507	0.507	strong	.	ACP6	36	.	NM_016361	exon10	c.C1239T	p.H413H	GAGTGCGTGGTAT	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240492734	240492734	+	Missense_Mutation	SNP	G	G	A	rs3795677	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	251	259	0	1	0	G|0.684;A|0.316	0.316	strong	FMN2,NS,carcinoma,+1,1	FMN2	451	1	NM_020066	exon10	c.G4403A	p.R1468H	CAATTCGTCGCAA	.	PASS	Atlas-SNP
GLIS1	148979	hgsc.bcm.edu	37	1	54060016	54060016	+	Missense_Mutation	SNP	G	G	C	rs35227000	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	11	7	29	0	0.636364	0	G|0.757;C|0.243	0.243	strong	.	GLIS1	52	.	NM_147193	exon3	c.C560G	p.A187G	CTGCCTGCCAGGC	.	PASS	Atlas-SNP
SCIMP	388325	hgsc.bcm.edu	37	17	5126674	5126674	+	Silent	SNP	A	A	G	rs2641256	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	95	147	0	0.989583	0	A|0.501;G|0.499	0.499	strong	.	.	.	.	NM_207103	exon2	c.T99C	p.G33G	GCCCAGACCCACA	.	PASS	Atlas-SNP
LAMC3	10319	hgsc.bcm.edu	37	9	133928345	133928345	+	Silent	SNP	C	C	T	rs12349966	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	76	88	0	1	0	C|0.531;T|0.469	0.469	strong	.	LAMC3	167	.	NM_006059	exon11	c.C1932T	p.S644S	CCCCAGCCCTGCC	.	PASS	Atlas-SNP
PCDHB16	57717	hgsc.bcm.edu	37	5	140564263	140564263	+	Missense_Mutation	SNP	C	C	T	rs61742755	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	57	110	0	0.662791	0	C|0.931;T|0.069	0.069	strong	.	PCDHB16	159	.	NM_020957	exon1	c.C2129T	p.A710V	TCGTGGCGGTGCG	.	PASS	Atlas-SNP
ZNF74	7625	hgsc.bcm.edu	37	22	20761063	20761063	+	Silent	SNP	G	G	A	rs2228236	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	43	103	0	0.457447	0	G|0.859;A|0.141	0.141	strong	.	ZNF74	54	.	NM_003426	exon5	c.G1740A	p.E580E	CAGCGAGGGGAAG	.	PASS	Atlas-SNP
MFF	56947	hgsc.bcm.edu	37	2	228194481	228194481	+	Missense_Mutation	SNP	G	G	T	rs3211098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	64	200	0	0.432432	0	G|0.737;T|0.263	0.263	strong	.	MFF	48	.	NM_020194	exon3	c.G20T	p.S7I	CAAGCAGTGACAC	.	PASS	Atlas-SNP
SLC12A6	9990	hgsc.bcm.edu	37	15	34528948	34528948	+	Silent	SNP	G	G	A	rs4577050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	357	159	348	0	0.445378	0	G|0.406;A|0.594	0.594	strong	.	SLC12A6	205	.	NM_133647	exon22	c.C3003T	p.L1001L	GTGCCGGAGCATC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	84	214	0	0.435233	0	C|0.670;T|0.330	0.330	strong	.	PLD2	138	.	NM_001243108	exon17	c.C1730T	p.T577I	CTCCCACATACCC	.	PASS	Atlas-SNP
OR51S1	119692	hgsc.bcm.edu	37	11	4870139	4870139	+	Silent	SNP	G	G	A	rs11602455	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	55	122	0	0.398551	0	G|0.691;A|0.309	0.309	strong	.	OR51S1	83	.	NM_001004758	exon1	c.C300T	p.V100V	GGCAGGGACAGTG	.	PASS	Atlas-SNP
COX11	1353	hgsc.bcm.edu	37	17	53038654	53038654	+	Missense_Mutation	SNP	A	A	C	rs1802212	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	41	96	0	0.506173	0	A|0.835;C|0.165	0.165	strong	.	COX11	16	.	NM_001162861	exon4	c.T682G	p.S228A	ACGTAGACTCTGT	.	PASS	Atlas-SNP
C6orf201	404220	hgsc.bcm.edu	37	6	4087949	4087949	+	Missense_Mutation	SNP	A	A	T	rs13200786	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	61	112	0	0.393548	0	A|0.950;T|0.050	0.050	strong	.	C6orf201	17	.	NM_001085401	exon2	c.A74T	p.D25V	AAGAGGACAAGAA	.	PASS	Atlas-SNP
RAET1E	135250	hgsc.bcm.edu	37	6	150212003	150212003	+	Missense_Mutation	SNP	C	C	T	rs9383583	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	29	64	0	0.402778	0	C|0.783;T|0.217	0.217	strong	.	RAET1E	20	.	NM_139165	exon1	c.G35A	p.R12H	AGAAGGCGCACAG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549582	32549582	+	Missense_Mutation	SNP	G	G	T	rs200516145	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	375	37	188	0	0.0986667	0	.	.	weak	.	HLA-DRB1	41	.	NM_002124	exon3	c.C404A	p.T135N	GGCTGGGTCTTTG	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29543663	29543663	+	Silent	SNP	T	T	C	rs2293564	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	187	210	1	1	0.0047619	T|0.203;C|0.797	0.797	strong	.	ALK	533	.	NM_004304	exon7	c.A1500G	p.Q500Q	CTGCCATTGAGGA	.	PASS	Atlas-SNP
GJD2	57369	hgsc.bcm.edu	37	15	35044757	35044757	+	Silent	SNP	C	C	T	rs34964522	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	47	92	0	0.534091	0	C|0.925;T|0.075	0.075	strong	GJD2,bladder,carcinoma,-2,1	GJD2	49	1	NM_020660	exon2	c.G888A	p.E296E	ACGAATCTCATAG	.	PASS	Atlas-SNP
DHX37	57647	hgsc.bcm.edu	37	12	125453115	125453115	+	Missense_Mutation	SNP	C	C	T	rs11057939	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	19	41	0	0.422222	0	C|0.906;T|0.094	0.094	strong	.	DHX37	114	.	NM_032656	exon10	c.G1373A	p.R458Q	ACCTTCCGGAAGC	.	PASS	Atlas-SNP
CLEC19A	728276	hgsc.bcm.edu	37	16	19297219	19297219	+	Missense_Mutation	SNP	T	T	G	rs179196	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	55	104	0	0.528846	0	T|0.805;G|0.195	0.195	strong	.	CLEC19A	4	.	NM_001256720	exon1	c.T46G	p.S16A	CTCCACTCTGCAC	.	PASS	Atlas-SNP
KIF17	57576	hgsc.bcm.edu	37	1	21042094	21042094	+	Silent	SNP	G	G	A	rs12046928	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	79	76	0	1	0	G|0.810;A|0.190	0.190	strong	.	KIF17	130	.	NM_001122819	exon2	c.C270T	p.Y90Y	CTGGCCGTAGGCA	.	PASS	Atlas-SNP
CDH6	1004	hgsc.bcm.edu	37	5	31302288	31302288	+	Silent	SNP	C	C	T	rs2287582	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	95	236	0	0.39916	0	C|0.591;T|0.409	0.409	strong	.	CDH6	175	.	NM_004932	exon6	c.C882T	p.D294D	CAGCGACGCTGAT	.	PASS	Atlas-SNP
ERBB2	2064	hgsc.bcm.edu	37	17	37879588	37879588	+	Missense_Mutation	SNP	A	A	G	rs1136201	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	93	249	0	0.390756	0	A|0.845;G|0.155;N|0.000;T|0.000	0.155	strong	.	ERBB2	429	.	NM_004448	exon17	c.A1963G	p.I655V	TCCATCATCTCTG	.	PASS	Atlas-SNP
SIGLEC12	89858	hgsc.bcm.edu	37	19	52000672	52000672	+	Missense_Mutation	SNP	G	G	A	rs3829658	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	226	225	235	1	0.995575	0.00425532	G|0.382;A|0.618	0.618	strong	SIGLEC12,NS,carcinoma,-1,2	SIGLEC12	243	2	NM_053003	exon6	c.C1433T	p.T478M	CCTAGCGTCACTC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228407059	228407059	+	Silent	SNP	G	G	T	rs141906801	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	123	212	0	0.510373	0	G|0.989;T|0.011	0.011	strong	.	OBSCN	2142	.	NM_001271223	exon9	c.G2688T	p.A896A	GCCGGCGTGCAGG	.	PASS	Atlas-SNP
INMT	11185	hgsc.bcm.edu	37	7	30791848	30791848	+	Missense_Mutation	SNP	G	G	A	rs4723010	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	50	98	0	0.46729	0	G|0.696;A|0.304	0.304	strong	.	INMT	38	.	NM_001199219	exon1	c.G82A	p.D28N	AGCTTCGATGGCA	.	PASS	Atlas-SNP
ATP10D	57205	hgsc.bcm.edu	37	4	47514685	47514685	+	Missense_Mutation	SNP	C	C	T	rs33995001	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	155	146	0	1	0	C|0.623;T|0.377	0.377	strong	.	ATP10D	168	.	NM_020453	exon2	c.C128T	p.T43I	CTCAGACCCCTAA	.	PASS	Atlas-SNP
GLB1	2720	hgsc.bcm.edu	37	3	33138549	33138549	+	Missense_Mutation	SNP	G	G	A	rs7637099	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	127	168	1	0.976923	0.00595238	G|0.527;A|0.473	0.473	strong	.	GLB1	51	.	NM_001135602	exon1	c.C29T	p.P10L	AACAGAGGGAGGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	45	39	0	0.978261	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
ANGPT2	285	hgsc.bcm.edu	37	8	6377433	6377433	+	Silent	SNP	C	C	T	rs1961222	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	120	225	1	0.46875	0.00444444	C|0.786;T|0.214	0.214	strong	.	ANGPT2	126	.	NM_001147	exon5	c.G882A	p.T294T	GCCATTCGTGGTG	.	PASS	Atlas-SNP
APIP	51074	hgsc.bcm.edu	37	11	34909926	34909926	+	Silent	SNP	T	T	G	rs1571133	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	72	78	0	1	0	T|0.394;G|0.606	0.606	strong	.	APIP	21	.	NM_015957	exon5	c.A375C	p.T125T	GAGAAGTGTGGCC	.	PASS	Atlas-SNP
GGCX	2677	hgsc.bcm.edu	37	2	85780107	85780107	+	Silent	SNP	G	G	A	rs10179904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	251	266	0	0.992095	0	G|0.893;A|0.107	0.107	strong	.	GGCX	44	.	NM_000821	exon9	c.C1242T	p.T414T	ACGGTAGGTGATC	.	PASS	Atlas-SNP
PLAUR	5329	hgsc.bcm.edu	37	19	44156472	44156472	+	Missense_Mutation	SNP	T	T	C	rs2302524	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	84	157	0	0.521739	0	T|0.832;C|0.168	0.168	strong	PLAUR,NS,carcinoma,0,1	PLAUR	71	1	NM_001005376	exon6	c.A659G	p.K220R	TTCCCCTTGCAGC	.	PASS	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	37	9	6984236	6984236	+	Missense_Mutation	SNP	G	G	A	rs2296067	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	42	107	0	0.428571	0	G|0.743;A|0.257	0.257	strong	KDM4C_ENST00000381306,NS,carcinoma,0,4	KDM4C	186	4	NM_001146696	exon10	c.G1252A	p.D418N	GAAGTCGATGGGG	.	PASS	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	37	17	18219835	18219835	+	Silent	SNP	T	T	C	rs3829956	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	64	108	0	0.496124	0	T|0.772;C|0.228	0.228	strong	.	SMCR8	62	.	NM_144775	exon1	c.T732C	p.I244I	CATCATTGAACAT	.	PASS	Atlas-SNP
MYPN	84665	hgsc.bcm.edu	37	10	69926097	69926097	+	Silent	SNP	T	T	C	rs2673794	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	133	107	0	1	0	T|0.465;C|0.535	0.535	strong	.	MYPN	189	.	NM_032578	exon10	c.T1647C	p.S549S	CAACTCTACCACC	.	PASS	Atlas-SNP
ITGA9	3680	hgsc.bcm.edu	37	3	37860417	37860417	+	Silent	SNP	C	C	T	rs142961075	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	82	148	0	0.569444	0	C|0.999;T|0.001	0.001	strong	.	ITGA9	98	.	NM_002207	exon28	c.C3045T	p.I1015I	AATTATCGAAGCT	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92086649	92086649	+	Silent	SNP	G	G	A	rs10830903	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	62	77	0	0.626263	0	G|0.939;A|0.061	0.061	strong	.	FAT3	1822	.	NM_001008781	exon1	c.G1371A	p.Q457Q	AGCACAGGTCACC	.	PASS	Atlas-SNP
ENPP7	339221	hgsc.bcm.edu	37	17	77709405	77709405	+	Silent	SNP	C	C	T	rs78553282	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	49	89	0	0.49	0	C|0.963;T|0.037	0.037	strong	.	ENPP7	63	.	NM_178543	exon3	c.C963T	p.Y321Y	CCACTACGCCAAC	.	PASS	Atlas-SNP
LMNB1	4001	hgsc.bcm.edu	37	5	126140522	126140522	+	Silent	SNP	T	T	C	rs3749830	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	67	113	0	0.5	0	T|0.948;C|0.052	0.052	strong	.	LMNB1	49	.	NM_005573	exon2	c.T414C	p.Y138Y	AGAATATGAAGCA	.	PASS	Atlas-SNP
DHRS13	147015	hgsc.bcm.edu	37	17	27225586	27225586	+	Missense_Mutation	SNP	A	A	T	rs4795472	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	57	130	0	0.491379	0	A|0.863;T|0.137	0.137	strong	.	DHRS13	22	.	NM_144683	exon5	c.T1007A	p.L336Q	GTGCTTAGAGAAG	.	PASS	Atlas-SNP
MYO5A	4644	hgsc.bcm.edu	37	15	52611351	52611351	+	Missense_Mutation	SNP	C	C	T	rs143298463	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	114	173	0	0.535211	0	C|0.995;T|0.005	0.005	strong	.	MYO5A	145	.	NM_000259	exon38	c.G5065A	p.V1689I	GCTTGACCACCTG	.	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	37	13	113479813	113479813	+	Silent	SNP	G	G	A	rs9549564	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	216	193	1	0.995392	0.00518135	G|0.774;A|0.226	0.226	strong	.	ATP11A	225	.	NM_032189	exon11	c.G942A	p.L314L	TGTGCTGAAATAC	.	PASS	Atlas-SNP
CYBA	1535	hgsc.bcm.edu	37	16	88713236	88713236	+	Missense_Mutation	SNP	A	A	G	rs4673	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	26	58	0	0.490566	0	A|0.349;G|0.651	0.651	strong	.	CYBA	12	.	NM_000101	exon4	c.T214C	p.Y72H	TCATGTACTTCTG	.	PASS	Atlas-SNP
ZSCAN1	284312	hgsc.bcm.edu	37	19	58564863	58564863	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	10	71	0	0.15873	0	.	.	none	.	ZSCAN1	102	.	NM_182572	exon6	c.C671T	p.P224L	CAGGGCCCTCCTC	.	PASS	Atlas-SNP
SLC26A9	115019	hgsc.bcm.edu	37	1	205887981	205887981	+	Missense_Mutation	SNP	T	T	C	rs16856462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	60	131	0	0.416667	0	T|0.899;C|0.101	0.101	strong	SLC26A9,upper_leg,malignant_melanoma,-1,1	SLC26A9	176	1	NM_134325	exon19	c.A2243G	p.H748R	AAGTTGTGTCCTG	.	PASS	Atlas-SNP
PLXNA1	5361	hgsc.bcm.edu	37	3	126708453	126708453	+	Silent	SNP	T	T	C	rs6773789	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	42	137	0	0.424242	0	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	.	PASS	Atlas-SNP
HMGCLL1	54511	hgsc.bcm.edu	37	6	55406863	55406863	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	3	135	0	0.0134529	0	.	.	none	HMGCLL1,NS,carcinoma,0,1	HMGCLL1	70	1	NM_019036	exon3	c.G274A	p.E92K	CCTTTTCATTCTG	.	scavenged	Atlas-SNP
MUS81	80198	hgsc.bcm.edu	37	11	65632262	65632262	+	Silent	SNP	G	G	T	rs558114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	62	73	0	1	0	G|0.512;T|0.488	0.488	strong	.	MUS81	68	.	NM_025128	exon12	c.G1248T	p.T416T	CTTGACGCGGGGC	.	PASS	Atlas-SNP
ADH4	127	hgsc.bcm.edu	37	4	100048414	100048414	+	Missense_Mutation	SNP	T	T	C	rs1126671	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	181	169	0	1	0	T|0.213;C|0.787	0.787	strong	.	ADH4	35	.	NM_000670	exon7	c.A925G	p.I309V	GAAAAATAGTCAA	.	PASS	Atlas-SNP
ZNF638	27332	hgsc.bcm.edu	37	2	71633275	71633275	+	Silent	SNP	T	T	C	rs3732233	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	51	126	0	0.344595	0	T|0.560;C|0.440	0.440	strong	.	ZNF638	179	.	NM_014497	exon19	c.T3018C	p.I1006I	TACAATTTATGAT	.	PASS	Atlas-SNP
SLCO1C1	53919	hgsc.bcm.edu	37	12	20852546	20852546	+	Silent	SNP	C	C	T	rs34243130	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	96	176	0	0.545455	0	C|0.953;T|0.047	0.047	strong	.	SLCO1C1	216	.	NM_017435	exon2	c.C36T	p.F12F	GTTGTTCTGCAAA	.	PASS	Atlas-SNP
PLG	5340	hgsc.bcm.edu	37	6	161173946	161173946	+	Silent	SNP	T	T	G	rs11060	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	617	272	612	2	0.440843	0.00326797	T|0.358;G|0.642	0.642	strong	.	PLG	150	.	NM_000301	exon19	c.T2286G	p.G762G	TGGAGGTCCTCTG	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25023459	25023459	+	Missense_Mutation	SNP	G	G	C	rs138813205	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	340	26	327	1	0.0764706	0.0030581	C|0.014;G|0.986	0.014	strong	GGT1,NS,carcinoma,0,1	GGT1	68	1	NM_013430	exon12	c.G1081C	p.D361H	TCTGACGACACCA	.	scavenged	Atlas-SNP
SYT16	83851	hgsc.bcm.edu	37	14	62462779	62462779	+	Silent	SNP	C	C	T	rs370890487		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	72	154	0	0.45283	0	.	.	weak	.	SYT16	144	.	NM_031914	exon1	c.C42T	p.F14F	CTTCTTCCAGCCT	.	PASS	Atlas-SNP
NUSAP1	51203	hgsc.bcm.edu	37	15	41634587	41634587	+	Missense_Mutation	SNP	A	A	G	rs7178634	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	58	133	0	0.423358	0	A|0.684;G|0.316	0.316	strong	NUSAP1,NS,carcinoma,0,2	NUSAP1	32	2	NM_018454	exon2	c.A97G	p.T33A	CAGGCAACCAAGT	.	PASS	Atlas-SNP
TRMT13	54482	hgsc.bcm.edu	37	1	100598867	100598867	+	Missense_Mutation	SNP	C	C	T	rs687513	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	55	72	0	0.982143	0	C|0.315;T|0.685	0.685	strong	.	.	.	.	NM_019083	exon1	c.C143T	p.A48V	GAGCCGCGGAGGT	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121577370	121577370	+	Missense_Mutation	SNP	T	T	C	rs7745023	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	52	121	0	0.577778	0	T|0.674;C|0.326	0.326	strong	C6orf170,NS,carcinoma,0,1	C6orf170	146	1	NM_152730	exon16	c.A1795G	p.I599V	AAAATATAGAAAT	.	PASS	Atlas-SNP
FCAMR	83953	hgsc.bcm.edu	37	1	207140447	207140447	+	Missense_Mutation	SNP	C	C	T	rs199884709	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	42	91	0	0.352941	0	C|0.999;T|0.001	0.001	strong	.	FCAMR	125	.	NM_001170631	exon3	c.G119A	p.R40K	GCCCTCCTGCTGG	.	PASS	Atlas-SNP
CDHR3	222256	hgsc.bcm.edu	37	7	105615406	105615406	+	Missense_Mutation	SNP	G	G	A	rs35008315	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	267	112	228	0	0.419476	0	G|0.824;A|0.176	0.176	strong	.	CDHR3	153	.	NM_152750	exon2	c.G163A	p.V55M	TCACCTGTGATCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	85	161	0	0.62963	0	T|0.603;C|0.397	0.397	strong	.	EFCAB6	177	.	NM_022785	exon11	c.A1051G	p.T351A	TTTTAGTGGTGGC	.	PASS	Atlas-SNP
RIF1	55183	hgsc.bcm.edu	37	2	152314385	152314385	+	Silent	SNP	G	G	A	rs16830047	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	52	109	0	0.396947	0	G|0.749;A|0.251	0.251	strong	.	RIF1	244	.	NM_018151	exon24	c.G2763A	p.L921L	ATTTCTGCACAAG	.	PASS	Atlas-SNP
MS4A4A	51338	hgsc.bcm.edu	37	11	60073626	60073626	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	377	179	408	1	0.474801	0.00245098	.	.	none	.	MS4A4A	76	.	NM_148975	exon6	c.G600A	p.V200V	TGCTGTGTCCCTC	.	PASS	Atlas-SNP
TRIM49C	642612	hgsc.bcm.edu	37	11	89774540	89774540	+	Missense_Mutation	SNP	C	C	A	rs75119043	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	418	112	473	0	0.267943	0	C|0.946;A|0.054	0.054	strong	.	TRIM49C	48	.	NM_001195234	exon8	c.C1181A	p.T394N	TTACCACCTCCCC	.	PASS	Atlas-SNP
THBS1	7057	hgsc.bcm.edu	37	15	39879717	39879717	+	Silent	SNP	G	G	A	rs2229364	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	15	72	0	0.394737	0	G|0.874;A|0.126	0.126	strong	.	THBS1	106	.	NM_003246	exon8	c.G1290A	p.K430K	TGACAAGAGATGT	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62196182	62196182	+	Silent	SNP	G	G	C	rs3810488	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	72	100	0	0.5625	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
MUC4	4585	hgsc.bcm.edu	37	3	195511273	195511273	+	Missense_Mutation	SNP	G	G	A	rs199533374		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	574	95	154	13	0.165505	0.0844156	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,4	MUC4	1505	4	NM_018406	exon2	c.C7178T	p.A2393V	GTGGATGCTGAGG	.	scavenged	Atlas-SNP
FAM209B	388799	hgsc.bcm.edu	37	20	55108507	55108507	+	Missense_Mutation	SNP	C	C	A	rs200150839		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	26	293	0	0.143646	0	.	.	weak	.	.	.	.	NM_001013646	exon1	c.C110A	p.P37Q	AGGTGCCGTGTGG	.	PASS	Atlas-SNP
ACAN	176	hgsc.bcm.edu	37	15	89398407	89398407	+	Missense_Mutation	SNP	C	C	T	rs3743398	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	47	89	0	0.522222	0	C|0.871;T|0.129	0.129	strong	.	ACAN	220	.	NM_001135	exon12	c.C2591T	p.P864L	GGGCCCCTGATGT	.	PASS	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	37	14	96800027	96800027	+	Missense_Mutation	SNP	C	C	T	rs183527316	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	46	106	0	0.484211	0	C|0.998;T|0.002	0.002	strong	.	ATG2B	169	.	NM_018036	exon8	c.G1205A	p.R402H	TTACCACGGCTAG	.	PASS	Atlas-SNP
ARHGAP27	201176	hgsc.bcm.edu	37	17	43472825	43472825	+	Missense_Mutation	SNP	G	G	C	rs117139057	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	40	73	0	0.555556	0	G|0.933;C|0.067	0.067	strong	.	ARHGAP27	37	.	NM_199282	exon17	c.C1644G	p.H548Q	CAGTCAGTGCGGC	.	PASS	Atlas-SNP
OR10H5	284433	hgsc.bcm.edu	37	19	15905639	15905639	+	Silent	SNP	C	C	T	rs3746151	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	80	220	0	0.441989	0	C|0.841;T|0.159	0.159	strong	.	OR10H5	49	.	NM_001004466	exon1	c.C781T	p.L261L	ATTTACCTGAAGC	.	PASS	Atlas-SNP
CTSH	1512	hgsc.bcm.edu	37	15	79237247	79237247	+	Missense_Mutation	SNP	C	C	G	rs1036938	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	42	124	0	0.446809	0	C|0.624;G|0.376	0.376	strong	.	CTSH	23	.	NM_004390	exon1	c.G77C	p.C26S	TTCACGCACAGTT	.	PASS	Atlas-SNP
TNFSF12-TNFSF13	407977	hgsc.bcm.edu	37	17	7462969	7462969	+	Missense_Mutation	SNP	A	A	G	rs3803800	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	53	52	0	0.981481	0	A|0.373;G|0.627	0.627	strong	.	TNFSF12-TNFSF13	16	.	NM_172089	exon7	c.A527G	p.N176S	GGGAGAATGGGGA	.	PASS	Atlas-SNP
MAGEB16	139604	hgsc.bcm.edu	37	X	35820696	35820696	+	Missense_Mutation	SNP	G	G	A	rs1410962	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	91	169	0	1	0	0|0.006;A|0.623	0.623	strong	.	MAGEB16	64	.	NM_001099921	exon2	c.G383A	p.C128Y	ACAAGTGTCAGAT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	19	31	0	0.44186	0	A|0.658;G|0.342	0.342	strong	.	EI24	33	.	NM_001007277	exon9	c.A745G	p.I249V	CAAAGCATAGTAA	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31605016	31605016	+	Missense_Mutation	SNP	T	T	C	rs35595439	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	52	104	0	0.52	0	T|0.993;C|0.007	0.007	strong	.	PRRC2A	152	.	NM_004638	exon30	c.T6248C	p.F2083S	GGTCCTTCTCTGG	.	PASS	Atlas-SNP
NDRG1	10397	hgsc.bcm.edu	37	8	134296524	134296524	+	Missense_Mutation	SNP	C	C	T	rs145871479	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	117	201	0	0.549296	0	C|0.999;T|0.001	0.001	strong	.	NDRG1	40	.	NM_006096	exon2	c.G31A	p.A11T	CCTCAGCGAGGTC	.	PASS	Atlas-SNP
MAP10	54627	hgsc.bcm.edu	37	1	232941153	232941153	+	Silent	SNP	C	C	T	rs12409898	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	153	183	0	1	0	C|0.474;T|0.526	0.526	strong	KIAA1383_ENST00000418460,NS,carcinoma,+2,2	.	.	2	NM_019090	exon1	c.C384T	p.F128F	CAGCTTCTCGTTT	.	PASS	Atlas-SNP
CRYZ	1429	hgsc.bcm.edu	37	1	75172001	75172001	+	Silent	SNP	T	T	A	rs7527057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	75	226	0	0.364078	0	T|0.678;A|0.322	0.322	strong	.	CRYZ	28	.	NM_001889	exon9	c.A969T	p.G323G	CATTTTTCCAGTA	.	PASS	Atlas-SNP
CELSR2	1952	hgsc.bcm.edu	37	1	109810544	109810544	+	Silent	SNP	C	C	A	rs2281894	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	107	163	0	1	0	C|0.824;A|0.176	0.176	strong	.	CELSR2	228	.	NM_001408	exon17	c.C6180A	p.R2060R	CCTGCGCAACGCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512212	195512212	+	Missense_Mutation	SNP	G	G	T	rs75588776	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	517	137	241	0	0.26499	0	G|0.816;T|0.185	0.185	strong	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C6239A	p.P2080H	AGAAGAGGGGTGG	.	PASS	Atlas-SNP
SLC24A3	57419	hgsc.bcm.edu	37	20	19565671	19565671	+	Silent	SNP	G	G	A	rs17293432	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	53	83	0	0.5	0	G|0.931;A|0.069	0.069	strong	.	SLC24A3	92	.	NM_020689	exon5	c.G480A	p.S160S	AAGTTCGGCCCCA	.	PASS	Atlas-SNP
ITIH6	347365	hgsc.bcm.edu	37	X	54781530	54781530	+	Missense_Mutation	SNP	C	C	G	rs17316491	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	121	234	0	1	0	C|0.935;0|0.004	.	strong	.	.	.	.	NM_198510	exon9	c.G3122C	p.W1041S	CCATCCCAGTTTG	.	PASS	Atlas-SNP
PLAC8L1	153770	hgsc.bcm.edu	37	5	145477855	145477855	+	Silent	SNP	T	T	C	rs6877277	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	55	107	0	0.44	0	T|0.766;C|0.234	0.234	strong	PLAC8L1,NS,carcinoma,0,1	PLAC8L1	17	1	NM_001029869	exon2	c.A120G	p.R40R	ATGGCCTCTGGAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508060	195508060	+	Missense_Mutation	SNP	G	G	A	rs200799263		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	21	101	0	0.0709459	0	.	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.C10391T	p.S3464L	GATGCTGAGGAAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	99	168	1	0.622642	0.00595238	C|0.700;T|0.300	0.300	strong	.	GSTM3	21	.	NM_000849	exon9	c.G670A	p.V224I	AGCATACAGGCTT	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17271989	17271989	+	Missense_Mutation	SNP	G	G	A	rs147139590	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	637	281	583	0	0.44113	0	G|0.974;A|0.026	0.026	strong	.	CROCC	185	.	NM_014675	exon15	c.G2024A	p.R675H	GGAAGCGCTCAGT	.	PASS	Atlas-SNP
CYP2C9	1559	hgsc.bcm.edu	37	10	96740981	96740981	+	Missense_Mutation	SNP	C	C	T	rs28371685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	107	158	1	0.537688	0.00632911	C|0.986;T|0.014	0.014	strong	CYP2C9,NS,carcinoma,-1,1	CYP2C9	82	1	NM_000771	exon7	c.C1003T	p.R335W	AGAAACCGGAGCC	.	scavenged	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11833365	11833365	+	Silent	SNP	G	G	A	rs1859887	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	80	186	0	0.39801	0	G|0.743;A|0.257	0.257	strong	.	DNAH9	695	.	NM_001372	exon63	c.G12060A	p.T4020T	CCCCACGGGCATG	.	PASS	Atlas-SNP
AGRN	375790	hgsc.bcm.edu	37	1	990280	990280	+	Silent	SNP	C	C	T	rs4275402	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	41	95	0	1	0	C|0.412;T|0.588	0.588	strong	.	AGRN	110	.	NM_198576	exon36	c.C6057T	p.D2019D	GCGGGACGTGGTG	.	PASS	Atlas-SNP
SMYD1	150572	hgsc.bcm.edu	37	2	88387403	88387403	+	Silent	SNP	C	C	A	rs1542088	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	146	247	0	0.538745	0	C|0.449;A|0.551	0.551	strong	SMYD1,NS,carcinoma,0,1	SMYD1	95	1	NM_198274	exon3	c.C337A	p.R113R	ATGTGGCGGGTGG	.	PASS	Atlas-SNP
DPY19L3	147991	hgsc.bcm.edu	37	19	32930069	32930069	+	Silent	SNP	G	G	A	rs6510249	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	60	91	0	0.437956	0	G|0.425;A|0.575	0.575	strong	.	DPY19L3	70	.	NM_001172774	exon7	c.G648A	p.A216A	CTGGGCGCTGCCA	.	PASS	Atlas-SNP
SRGN	5552	hgsc.bcm.edu	37	10	70856852	70856852	+	Missense_Mutation	SNP	G	G	A	rs2229498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	152	117	0	1	0	G|0.351;A|0.649	0.649	strong	.	SRGN	15	.	NM_002727	exon2	c.G92A	p.R31Q	CTACGCGGAGAGC	.	PASS	Atlas-SNP
CCDC9	26093	hgsc.bcm.edu	37	19	47774772	47774772	+	Missense_Mutation	SNP	T	T	C	rs888836	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	30	41	0	0.5	0	T|0.563;C|0.437	0.437	strong	.	CCDC9	37	.	NM_015603	exon12	c.T1433C	p.L478P	CCCTGCTGGAGCC	.	PASS	Atlas-SNP
SPATA9	83890	hgsc.bcm.edu	37	5	94994339	94994339	+	Silent	SNP	A	A	G	rs10705	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	76	137	0	0.484076	0	A|0.846;G|0.154	0.154	strong	.	SPATA9	17	.	NM_031952	exon5	c.T753C	p.N251N	TTGCTCATTCATT	.	PASS	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	37	10	3191823	3191823	+	Missense_Mutation	SNP	C	C	T	rs2388556	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	41	104	0	0.43617	0	C|0.892;T|0.108	0.108	strong	.	PITRM1	109	.	NM_014889	exon16	c.G1861A	p.V621I	TGAGGACGCTGCA	.	PASS	Atlas-SNP
WNT10A	80326	hgsc.bcm.edu	37	2	219754822	219754822	+	Missense_Mutation	SNP	G	G	A	rs77583146	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	44	64	0	0.53012	0	G|0.993;A|0.007	0.007	strong	.	WNT10A	35	.	NM_025216	exon3	c.G493A	p.G165R	CGGCGAGGGGACG	.	PASS	Atlas-SNP
MON1B	22879	hgsc.bcm.edu	37	16	77228866	77228866	+	Silent	SNP	T	T	C	rs2232504	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	68	134	0	0.485714	0	T|0.276;C|0.724	0.724	strong	MON1B,NS,carcinoma,+2,1	MON1B	55	1	NM_014940	exon4	c.T1110C	p.V370V	CCTGGTTGAAGAT	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8191184	8191184	+	Missense_Mutation	SNP	C	C	T	rs35025963	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	64	141	0	0.467153	0	C|0.760;T|0.240	0.240	strong	.	FBN3	300	.	NM_032447	exon20	c.G2602A	p.D868N	TACCATCGCAGGT	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1258387	1258387	+	Missense_Mutation	SNP	G	G	A	rs202160055		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	3	39	0	0.125	0	.	.	weak	MUC5B,NS,carcinoma,+1,4	MUC5B	473	4	NM_002458	exon25	c.G3290A	p.R1097H	CCTGCCGCTCCCA	.	scavenged	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152730807	152730807	+	Missense_Mutation	SNP	C	C	G	rs374482089		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	43	83	0	0.505882	0	.	.	weak	.	SYNE1	3227	.	NM_033071	exon43	c.G6289C	p.E2097Q	GATATTCTCTCAT	.	PASS	Atlas-SNP
STX1A	6804	hgsc.bcm.edu	37	7	73122977	73122977	+	Silent	SNP	G	G	A	rs2229854	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	48	128	0	0.372093	0	G|0.908;A|0.092	0.092	strong	.	STX1A	16	.	NM_004603	exon3	c.C150T	p.N50N	CTCCACGTTCTCT	.	PASS	Atlas-SNP
FST	10468	hgsc.bcm.edu	37	5	52781029	52781029	+	Silent	SNP	G	G	A	rs11746136	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	27	52	0	0.473684	0	G|0.983;A|0.017	0.017	strong	.	FST	42	.	NM_013409	exon5	c.G924A	p.L308L	GCTACTGGAAGTA	.	PASS	Atlas-SNP
PLXNB3	5365	hgsc.bcm.edu	37	X	153035798	153035798	+	Missense_Mutation	SNP	G	G	A	rs2266879	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	140	260	0	1	0	G|0.542;A|0.458	0.458	strong	.	PLXNB3	208	.	NM_001163257	exon10	c.G1861A	p.V621I	GACCACGTCACTG	.	PASS	Atlas-SNP
TRAF6	7189	hgsc.bcm.edu	37	11	36518764	36518764	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	19	68	0	0.452381	0	.	.	none	.	TRAF6	56	.	NM_004620	exon4	c.G500A	p.R167H	AAGGGACGCTGGC	.	PASS	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	37	18	44149474	44149474	+	Silent	SNP	G	G	A	rs2086005	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	65	140	0	0.575221	0	G|0.917;A|0.083	0.083	strong	.	LOXHD1	367	.	NM_144612	exon16	c.C2175T	p.N725N	GAGGTTGTTGTCA	.	PASS	Atlas-SNP
TAP2	6891	hgsc.bcm.edu	37	6	32800412	32800412	+	Missense_Mutation	SNP	C	C	T	rs1800454	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	186	172	1	0.984127	0.00581395	C|0.860;T|0.140	0.140	strong	TAP2_ENST00000458336,NS,carcinoma,0,4	TAP2	98	4	NM_018833	exon6	c.G1135A	p.V379I	TCCTTACGAGCAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506746	195506746	+	Missense_Mutation	SNP	G	G	A	rs192522651	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25	15	2	0	0.6	0	G|0.951;A|0.049	0.049	strong	MUC4_ENST00000463781,NS,carcinoma,-1,4	MUC4	1505	4	NM_018406	exon2	c.C11705T	p.A3902V	GGGGTGGCGTGAC	.	PASS	Atlas-SNP
CNDP1	84735	hgsc.bcm.edu	37	18	72238472	72238472	+	Missense_Mutation	SNP	C	C	A	rs73973908	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	292	104	291	0	0.356164	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
CSPG4	1464	hgsc.bcm.edu	37	15	75982428	75982428	+	Silent	SNP	C	C	T	rs7182906	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	80	190	0	0.444444	0	C|0.702;T|0.298	0.298	strong	CSPG4,NS,carcinoma,0,1	CSPG4	175	1	NM_001897	exon3	c.G978A	p.G326G	ATCCAGCCCCCCG	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28386626	28386626	+	Silent	SNP	C	C	T	rs11636232	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	90	188	0	0.471204	0	C|0.783;T|0.217	0.217	strong	.	HERC2	501	.	NM_004667	exon78	c.G11967A	p.Q3989Q	GATTAACTGCACG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179650701	179650701	+	Silent	SNP	C	C	T	rs6715406	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	82	178	0	0.476744	0	C|0.722;T|0.278	0.278	strong	.	TTN	18412	.	NM_001267550	exon14	c.G2244A	p.E748E	GGGAGGCTCAGCT	.	PASS	Atlas-SNP
VNN1	8876	hgsc.bcm.edu	37	6	133015271	133015271	+	Missense_Mutation	SNP	T	T	C	rs2272996	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	117	222	0	0.609375	0	T|0.736;C|0.264	0.264	strong	.	VNN1	69	.	NM_004666	exon3	c.A392G	p.N131S	ATAGAGTTGTTCT	.	PASS	Atlas-SNP
KIAA1609	57707	hgsc.bcm.edu	37	16	84522897	84522897	+	Missense_Mutation	SNP	G	G	C	rs436278	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	51	101	0	0.451327	0	G|0.511;C|0.489	0.489	strong	KIAA1609,NS,carcinoma,0,1	KIAA1609	39	1	NM_020947	exon4	c.C516G	p.D172E	CTTCATGTCAGAG	.	PASS	Atlas-SNP
TMC5	79838	hgsc.bcm.edu	37	16	19475099	19475099	+	Missense_Mutation	SNP	C	C	A	rs61737709	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	45	82	0	0.445545	0	C|0.956;A|0.044	0.044	strong	.	TMC5	169	.	NM_001105249	exon8	c.C1238A	p.A413D	TCCAGGCTTATCG	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60897104	60897104	+	Missense_Mutation	SNP	C	C	T	rs141208202	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	17	25	0	0.607143	0	C|0.973;T|0.027	0.027	strong	.	LAMA5	268	.	NM_005560	exon48	c.G6467A	p.G2156E	ACAGGCCCGCCTG	.	PASS	Atlas-SNP
FAM173B	134145	hgsc.bcm.edu	37	5	10236693	10236693	+	Missense_Mutation	SNP	A	A	G	rs17360625	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	42	88	0	0.368421	0	A|0.979;G|0.021	0.021	strong	.	FAM173B	24	.	NM_199133	exon3	c.T341C	p.V114A	TAACCAACTGCTG	.	PASS	Atlas-SNP
MARCH7	64844	hgsc.bcm.edu	37	2	160604781	160604781	+	Missense_Mutation	SNP	G	G	A	rs142330597	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	41	77	0	0.42268	0	G|0.999;A|0.001	0.001	strong	MARCH7,NS,carcinoma,+1,1	MARCH7	48	1	NM_022826	exon5	c.G980A	p.R327H	AGTCCCGTAGTAA	.	PASS	Atlas-SNP
POTEM	641455	hgsc.bcm.edu	37	14	20010235	20010235	+	Missense_Mutation	SNP	A	A	G	rs8135863	bycluster;by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	4	3	256	0	0.75	0	A|0.250;G|0.750	0.750	weak	POTEM_ENST00000551509,NS,carcinoma,0,4	POTEM	51	4	NM_001145442	exon5	c.T923C	p.V308A	ATGAGAACAGTTC	.	scavenged	Atlas-SNP
PLA2G4E	123745	hgsc.bcm.edu	37	15	42287578	42287578	+	Silent	SNP	G	G	A	rs1668586	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	114	124	0	0.982759	0	G|0.328;A|0.672	0.672	strong	.	PLA2G4E	60	.	NM_001206670	exon12	c.C1227T	p.T409T	TAGACCGGTGATG	.	PASS	Atlas-SNP
ZNF853	54753	hgsc.bcm.edu	37	7	6661256	6661256	+	Missense_Mutation	SNP	C	C	G	rs11971880	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	330	162	304	0	0.490909	0	C|0.905;G|0.095	0.095	strong	.	ZNF853	32	.	NM_017560	exon3	c.C634G	p.Q212E	CAGTTACAGCAGC	.	PASS	Atlas-SNP
POLN	353497	hgsc.bcm.edu	37	4	2194953	2194953	+	Silent	SNP	G	G	A	rs10002583	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	76	243	0	0.426966	0	G|0.735;A|0.265	0.265	strong	.	POLN	82	.	NM_181808	exon5	c.C999T	p.G333G	ATCATTGCCAAAA	.	PASS	Atlas-SNP
TCTN3	26123	hgsc.bcm.edu	37	10	97447373	97447373	+	Silent	SNP	A	A	T	rs10786229	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	58	116	0	0.517857	0	A|0.624;T|0.376	0.376	strong	.	TCTN3	66	.	NM_015631	exon4	c.T603A	p.T201T	TGATTGAGTTTGG	.	PASS	Atlas-SNP
EDEM1	9695	hgsc.bcm.edu	37	3	5229643	5229643	+	Silent	SNP	C	C	T	rs144177905	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	15	39	0	0.714286	0	C|0.985;T|0.015	0.015	strong	.	EDEM1	45	.	NM_014674	exon1	c.C153T	p.G51G	CGACGGCCCCGCG	.	PASS	Atlas-SNP
CRABP1	1381	hgsc.bcm.edu	37	15	78632830	78632830	+	Silent	SNP	C	C	G	rs1127472	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	124	183	0	0.976378	0	C|0.453;G|0.547	0.547	strong	CRABP1,NS,carcinoma,0,1	CRABP1	21	1	NM_004378	exon1	c.C60G	p.L20L	GCTGCTCAAGGCA	.	PASS	Atlas-SNP
ZNF214	7761	hgsc.bcm.edu	37	11	7022717	7022717	+	Missense_Mutation	SNP	T	T	C	rs1156526	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	39	72	0	0.5	0	C|0.558;N|0.000	0.558	strong	.	ZNF214	65	.	NM_013249	exon3	c.A197G	p.Y66C	TGCCAGTAGGAAA	.	PASS	Atlas-SNP
RIPK4	54101	hgsc.bcm.edu	37	21	43161877	43161877	+	Silent	SNP	C	C	T	rs3746893	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	56	48	0	0.965517	0	C|0.576;T|0.424	0.424	strong	.	RIPK4	151	.	NM_020639	exon8	c.G1476A	p.A492A	CTTCCGCGCCAGC	.	PASS	Atlas-SNP
MUTYH	4595	hgsc.bcm.edu	37	1	45797505	45797505	+	Missense_Mutation	SNP	C	C	G	rs3219489	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	19	57	0	0.513514	0	C|0.710;G|0.290	0.290	strong	.	MUTYH	38	.	NM_001128425	exon12	c.G1014C	p.Q338H	GTGGCACTGTCCA	.	PASS	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	37	1	86909582	86909582	+	Missense_Mutation	SNP	G	G	A	rs1413426	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	33	97	0	0.336735	0	G|0.904;A|0.096	0.096	strong	.	CLCA2	102	.	NM_006536	exon10	c.G1601A	p.G534D	CCAGTGGTCCTCC	.	PASS	Atlas-SNP
PAK7	57144	hgsc.bcm.edu	37	20	9547018	9547018	+	Missense_Mutation	SNP	C	C	G	rs11700112	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	19	48	0	0.395833	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
MEX3B	84206	hgsc.bcm.edu	37	15	82336551	82336551	+	Silent	SNP	C	C	T	rs61752329	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	62	131	0	0.53913	0	C|0.940;T|0.060	0.060	strong	.	MEX3B	50	.	NM_032246	exon2	c.G660A	p.E220E	CTCAATCTCCTCT	.	PASS	Atlas-SNP
SYT10	341359	hgsc.bcm.edu	37	12	33535289	33535289	+	Silent	SNP	G	G	A	rs10844571	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	61	123	0	0.61	0	G|0.800;A|0.200	0.200	strong	.	SYT10	109	.	NM_198992	exon5	c.C1365T	p.Y455Y	CCTATCGTAATCC	.	PASS	Atlas-SNP
HRC	3270	hgsc.bcm.edu	37	19	49658367	49658367	+	Missense_Mutation	SNP	C	C	T	rs3745298	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	33	90	0	0.366667	0	C|0.523;T|0.477	0.477	strong	.	HRC	85	.	NM_002152	exon1	c.G128A	p.S43N	CCAGTGCTGTTGT	.	PASS	Atlas-SNP
C12orf60	144608	hgsc.bcm.edu	37	12	14976178	14976178	+	Missense_Mutation	SNP	T	T	A	rs7307438	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	90	111	0	0.576923	0	T|0.822;A|0.178	0.178	strong	.	C12orf60	31	.	NM_175874	exon2	c.T309A	p.N103K	TACCAATGTAGAG	.	PASS	Atlas-SNP
CCDC174	51244	hgsc.bcm.edu	37	3	14712433	14712433	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	91	165	0	0.441748	0	.	.	none	.	.	.	.	NM_016474	exon11	c.A1136G	p.Q379R	AGAGGCAGTCAGA	.	PASS	Atlas-SNP
TRIP4	9325	hgsc.bcm.edu	37	15	64710827	64710827	+	Silent	SNP	T	T	C	rs4776494	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	54	104	0	0.477876	0	T|0.892;C|0.108	0.108	strong	.	TRIP4	43	.	NM_016213	exon9	c.T1258C	p.L420L	CACCAGTTGCGAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	135	135	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
GPER	2852	hgsc.bcm.edu	37	7	1131411	1131411	+	Missense_Mutation	SNP	C	C	T	rs11544331	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	59	115	0	0.551402	0	C|0.808;T|0.192	0.192	strong	.	GPER	25	.	NM_001505	exon2	c.C47T	p.P16L	TGTACCCAGGCAC	.	PASS	Atlas-SNP
ACE	1636	hgsc.bcm.edu	37	17	61573761	61573761	+	Silent	SNP	T	T	C	rs4362	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	207	195	0	1	0	T|0.478;C|0.522	0.522	strong	.	ACE	187	.	NM_000789	exon23	c.T3387C	p.F1129F	GTACTTTGTCAGC	.	PASS	Atlas-SNP
KLF12	11278	hgsc.bcm.edu	37	13	74339104	74339104	+	Silent	SNP	G	G	T	rs3764134	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	18	44	0	0.409091	0	G|0.544;T|0.456	0.456	strong	.	KLF12	42	.	NM_007249	exon6	c.C840A	p.G280G	TCGATTGCCCCGG	.	PASS	Atlas-SNP
C1orf141	400757	hgsc.bcm.edu	37	1	67558756	67558756	+	Missense_Mutation	SNP	C	C	T	rs41313272	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	29	106	0	0.353659	0	C|0.903;T|0.097	0.097	strong	.	C1orf141	58	.	NM_001276351	exon8	c.G1135A	p.E379K	TTAGTTCATATAT	.	PASS	Atlas-SNP
CCL15	6359	hgsc.bcm.edu	37	17	34328461	34328461	+	Missense_Mutation	SNP	A	A	G	rs854625	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	226	225	221	1	0.995575	0.00452489	A|0.198;G|0.802	0.802	strong	.	CCL15	15	.	NM_032965	exon1	c.T71C	p.I24T	CCATTTATGAACT	.	PASS	Atlas-SNP
MEFV	4210	hgsc.bcm.edu	37	16	3304762	3304762	+	Silent	SNP	A	A	G	rs224225	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	24	33	0	0.545455	0	A|0.557;G|0.443	0.443	strong	MEFV,NS,carcinoma,0,1	MEFV	170	1	NM_000243	exon2	c.T306C	p.D102D	GGAATCATCTGTG	.	PASS	Atlas-SNP
TBC1D19	55296	hgsc.bcm.edu	37	4	26585881	26585881	+	Silent	SNP	C	C	T	rs4692549	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	90	99	0	1	0	C|0.679;T|0.321	0.321	strong	.	TBC1D19	53	.	NM_018317	exon1	c.C66T	p.S22S	GGGCTCCAATTTG	.	PASS	Atlas-SNP
GNB3	2784	hgsc.bcm.edu	37	12	6954864	6954864	+	Missense_Mutation	SNP	G	G	A	rs5442	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	78	123	0	0.496815	0	G|0.955;A|0.045	0.045	strong	.	GNB3	36	.	NM_002075	exon10	c.G814A	p.G272S	ATCTGCGGCATCA	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47269233	47269233	+	Missense_Mutation	SNP	C	C	G	rs41283558	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	41	85	0	0.602941	0	C|0.852;G|0.148	0.148	strong	PREX1_ENST00000396220,colon,carcinoma,0,2	PREX1	441	2	NM_020820	exon21	c.G2358C	p.Q786H	GATCCACTGGTAC	.	PASS	Atlas-SNP
BRMS1	25855	hgsc.bcm.edu	37	11	66105194	66105194	+	Missense_Mutation	SNP	G	G	A	rs1052566	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	34	90	0	0.5	0	G|0.765;A|0.235	0.235	strong	.	BRMS1	42	.	NM_001024957	exon10	c.C818T	p.A273V	GTCCAGGCCAGTG	.	PASS	Atlas-SNP
PHTF2	57157	hgsc.bcm.edu	37	7	77552127	77552127	+	Missense_Mutation	SNP	G	G	A	rs848486	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25	25	32	0	1	0	G|0.399;A|0.601	0.601	strong	.	PHTF2	104	.	NM_001127359	exon9	c.G1049A	p.R350H	ACATACGTATCTA	.	PASS	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	37	4	175898983	175898983	+	Missense_Mutation	SNP	A	A	T	rs139492823	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	26	158	0	0.12381	0	A|0.996;T|0.005	0.005	strong	.	ADAM29	262	.	NM_001130703	exon4	c.A2307T	p.Q769H	GAGTCAACCTCGG	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228494790	228494790	+	Missense_Mutation	SNP	G	G	A	rs435776	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	339	167	285	0	0.492625	0	G|0.711;A|0.289	0.289	strong	OBSCN_ENST00000570156,NS,carcinoma,0,2	OBSCN	2142	2	NM_001271223	exon56	c.G14986A	p.G4996R	GTACGCGGAGTGG	.	PASS	Atlas-SNP
CDAN1	146059	hgsc.bcm.edu	37	15	43022868	43022868	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	10	179	0	0.0537634	0	.	.	none	.	CDAN1	70	.	NM_138477	exon14	c.C2102T	p.S701F	GCAAAGGAGAGAA	.	PASS	Atlas-SNP
PGPEP1L	145814	hgsc.bcm.edu	37	15	99514335	99514335	+	Missense_Mutation	SNP	A	A	G	rs116915938	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	43	76	0	0.443299	0	A|0.991;G|0.009	0.009	strong	.	PGPEP1L	26	.	NM_001102612	exon3	c.T74C	p.L25P	AGCTCCAGAGTCC	.	PASS	Atlas-SNP
PLA2G4C	8605	hgsc.bcm.edu	37	19	48602951	48602951	+	Missense_Mutation	SNP	C	C	A	rs11564534	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	67	138	0	0.471831	0	C|0.991;A|0.009	0.009	strong	.	PLA2G4C	76	.	NM_001159322	exon5	c.G454T	p.V152F	AGATAACCATGTA	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144940290	144940290	+	Missense_Mutation	SNP	C	C	G	rs201976887	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	16	289	0	0.0744186	0	.	.	weak	EPPK1,NS,carcinoma,0,5	EPPK1	199	5	NM_031308	exon1	c.G7132C	p.D2378H	TGGGGTCGGCCAG	.	PASS	Atlas-SNP
TCF20	6942	hgsc.bcm.edu	37	22	42606257	42606257	+	Silent	SNP	C	C	T	rs2070116	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	112	141	0	0.612022	0	C|0.788;T|0.212	0.212	strong	.	TCF20	164	.	NM_181492	exon1	c.G5055A	p.S1685S	AAAGGACGAGGCC	.	PASS	Atlas-SNP
TRAPPC12	51112	hgsc.bcm.edu	37	2	3483205	3483205	+	Silent	SNP	C	C	T	rs6767	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	79	197	0	0.436464	0	C|0.531;T|0.469	0.469	strong	.	.	.	.	NM_016030	exon12	c.C2181T	p.F727F	CAGCTTCAACACA	.	PASS	Atlas-SNP
ZNF440	126070	hgsc.bcm.edu	37	19	11942771	11942771	+	Silent	SNP	G	G	A	rs436411	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	38	75	0	0.5	0	G|0.655;A|0.345	0.345	strong	.	ZNF440	56	.	NM_152357	exon4	c.G780A	p.E260E	TCAGGAGTGTGGG	.	PASS	Atlas-SNP
KY	339855	hgsc.bcm.edu	37	3	134369716	134369716	+	Silent	SNP	C	C	A	rs13060869	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	54	105	0	0.55102	0	C|0.832;A|0.168	0.168	strong	.	KY	92	.	NM_178554	exon1	c.G87T	p.T29T	TGAGAGCGTACCC	.	PASS	Atlas-SNP
OR2G2	81470	hgsc.bcm.edu	37	1	247752161	247752161	+	Missense_Mutation	SNP	T	T	C	rs10925085	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	226	92	197	0	0.40708	0	T|0.676;C|0.324	0.324	strong	.	OR2G2	88	.	NM_001001915	exon1	c.T500C	p.L167P	TCACCCTGCAGCT	.	PASS	Atlas-SNP
KRT78	196374	hgsc.bcm.edu	37	12	53242440	53242440	+	Missense_Mutation	SNP	A	A	G	rs2013335	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	206	179	0	1	0	A|0.507;G|0.493	0.493	strong	.	KRT78	41	.	NM_173352	exon1	c.T275C	p.L92P	GTCAGCAGATTCT	.	PASS	Atlas-SNP
DMRT3	58524	hgsc.bcm.edu	37	9	990653	990653	+	Missense_Mutation	SNP	G	G	T	rs16927037	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	61	138	0	0.442029	0	G|0.946;T|0.054	0.054	strong	DMRT3,NS,carcinoma,+1,1	DMRT3	83	1	NM_021240	exon2	c.G1067T	p.G356V	TGGCTGGGCCTCT	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	17113479	17113479	+	Silent	SNP	G	G	A	rs17432826	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	40	66	0	0.465116	0	G|0.986;A|0.014	0.014	strong	.	CUBN	515	.	NM_001081	exon19	c.C2571T	p.N857N	AGTGAAGTTGAGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	38	81	0	0.408602	0	T|0.699;C|0.301	0.301	strong	.	MTUS1	144	.	NM_001001924	exon7	c.A2676G	p.T892T	GGGAGCTGTCTGT	.	PASS	Atlas-SNP
BTBD16	118663	hgsc.bcm.edu	37	10	124096035	124096035	+	Silent	SNP	T	T	C	rs3817281	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	57	100	0	0.504425	0	T|0.613;C|0.387	0.387	strong	.	BTBD16	44	.	NM_144587	exon15	c.T1290C	p.S430S	GGAATCTCCCTCT	.	PASS	Atlas-SNP
SLC26A9	115019	hgsc.bcm.edu	37	1	205889329	205889329	+	Silent	SNP	C	C	T	rs16856470	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	110	212	0	0.44898	0	C|0.930;T|0.070	0.070	strong	.	SLC26A9	176	.	NM_134325	exon18	c.G2085A	p.V695V	GACCTTCACGCCG	.	PASS	Atlas-SNP
COL5A3	50509	hgsc.bcm.edu	37	19	10114252	10114252	+	Missense_Mutation	SNP	C	C	G	rs61742765	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	98	218	0	0.502564	0	C|0.852;G|0.148	0.148	strong	.	COL5A3	243	.	NM_015719	exon6	c.G838C	p.A280P	TCTCTGCGGAGTC	.	PASS	Atlas-SNP
CCRL2	9034	hgsc.bcm.edu	37	3	46450070	46450070	+	Missense_Mutation	SNP	T	T	A	rs3204849	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	62	84	0	0.666667	0	T|0.631;A|0.369	0.369	strong	.	CCRL2	23	.	NM_001130910	exon2	c.T536A	p.F179Y	CTGAATTCGTGGT	.	PASS	Atlas-SNP
NMT1	4836	hgsc.bcm.edu	37	17	43176804	43176804	+	Silent	SNP	C	C	T	rs2239923	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	215	276	0	0.99537	0	C|0.780;T|0.220	0.220	strong	.	NMT1	31	.	NM_021079	exon8	c.C916T	p.L306L	CGGAAGCTGATTG	.	PASS	Atlas-SNP
BAZ2B	29994	hgsc.bcm.edu	37	2	160289480	160289480	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	3	194	0	0.0152284	0	.	.	none	BAZ2B,rectum,carcinoma,-1,5	BAZ2B	196	5	NM_013450	exon9	c.G1688A	p.G563E	TCCTTCCCTTGAC	.	scavenged	Atlas-SNP
CNTN6	27255	hgsc.bcm.edu	37	3	1424745	1424745	+	Silent	SNP	C	C	T	rs4684146	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	236	116	225	0	0.491525	0	C|0.816;T|0.184	0.184	strong	.	CNTN6	245	.	NM_014461	exon18	c.C2286T	p.V762V	GTTTGTCTACAGA	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96540204	96540204	+	Missense_Mutation	SNP	T	T	G	rs12876018	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	94	156	0	0.562874	0	G|0.356;N|0.001	0.356	strong	.	UGGT2	127	.	NM_020121	exon26	c.A2980C	p.M994L	TCTTCATGTTGAT	.	PASS	Atlas-SNP
ABCG2	9429	hgsc.bcm.edu	37	4	89052323	89052323	+	Missense_Mutation	SNP	G	G	T	rs2231142	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	75	166	0	0.483871	0	G|0.883;T|0.117	0.117	strong	ABCG2,NS,carcinoma,0,1	ABCG2	151	1	NM_004827	exon5	c.C421A	p.Q141K	AGAACTGTAAGTT	.	PASS	Atlas-SNP
CHSY3	337876	hgsc.bcm.edu	37	5	129521126	129521126	+	Missense_Mutation	SNP	A	A	G	rs2015018	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	132	134	0	0.992481	0	A|0.403;G|0.597	0.597	strong	.	CHSY3	92	.	NM_175856	exon3	c.A2291G	p.D764G	CTGATGATTACTT	.	PASS	Atlas-SNP
PEAK1	0	hgsc.bcm.edu	37	15	77407114	77407114	+	Missense_Mutation	SNP	C	C	G	rs1867780	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	22	62	0	0.37931	0	C|0.750;G|0.250	0.250	strong	.	.	.	.	NM_024776	exon8	c.G4625C	p.S1542T	GTGGGGCTGGGCT	.	PASS	Atlas-SNP
TMEM194B	100131211	hgsc.bcm.edu	37	2	191379268	191379268	+	Silent	SNP	G	G	A	rs4586658	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	372	371	351	0	0.997312	0	G|0.492;A|0.508	0.508	strong	.	TMEM194B	18	.	NM_001142645	exon7	c.C864T	p.A288A	AGGCACGGCCACA	.	PASS	Atlas-SNP
SALL3	27164	hgsc.bcm.edu	37	18	76757145	76757145	+	Silent	SNP	C	C	T	rs148335210	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	4	76	0	0.0465116	0	C|0.999;T|0.001	0.001	strong	SALL3,NS,malignant_melanoma,+2,1	SALL3	162	1	NM_171999	exon3	c.C3726T	p.P1242P	GCTCCCCGTGAGT	.	PASS	Atlas-SNP
POLR2M	81488	hgsc.bcm.edu	37	15	58000981	58000981	+	Silent	SNP	C	C	T	rs1062707	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	83	182	0	0.419192	0	C|0.426;T|0.574	0.574	strong	.	POLR2M	2	.	NM_015532	exon2	c.C183T	p.A61A	AGCTGCCATTGCA	.	PASS	Atlas-SNP
TMEM131	23505	hgsc.bcm.edu	37	2	98409046	98409046	+	Missense_Mutation	SNP	G	G	A	rs12995673	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	64	171	0	0.470588	0	G|0.781;A|0.219	0.219	strong	.	TMEM131	258	.	NM_015348	exon31	c.C3947T	p.P1316L	GGCTGCGGCTCCT	.	PASS	Atlas-SNP
SCNN1A	6337	hgsc.bcm.edu	37	12	6472753	6472753	+	Silent	SNP	C	C	A	rs55859427	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	11	26	0	0.647059	0	C|0.985;A|0.015	0.015	strong	.	SCNN1A	54	.	NM_001159576	exon2	c.G717T	p.L239L	CCCCCGCAGGTCG	.	PASS	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178564906	178564906	+	Silent	SNP	G	G	A	rs369654932		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	24	132	0	0.311688	0	.	.	weak	ADAMTS2,colon,carcinoma,0,1	ADAMTS2	190	1	NM_014244	exon12	c.C1815T	p.Y605Y	GAAGTCGTAGGCA	.	PASS	Atlas-SNP
TAB2	23118	hgsc.bcm.edu	37	6	149700491	149700491	+	Silent	SNP	G	G	A	rs3734296	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	41	78	0	0.482353	0	G|0.856;A|0.144	0.144	strong	.	TAB2	55	.	NM_015093	exon5	c.G1440A	p.V480V	AGGGGTGGTGTCC	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7887248	7887248	+	Silent	SNP	G	G	A	rs2859387	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	19	72	0	0.395833	0	G|0.567;A|0.433	0.433	strong	PER3,NS,carcinoma,+1,1	PER3	95	1	NM_016831	exon17	c.G2235A	p.P745P	GCTGCCGGAGCCG	.	PASS	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	37	4	57182647	57182647	+	Silent	SNP	G	G	A	rs3822003	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	30	68	0	0.555556	0	G|0.773;A|0.227	0.227	strong	.	KIAA1211	178	.	NM_020722	exon8	c.G2979A	p.A993A	CCGAGCGGGGAGG	.	PASS	Atlas-SNP
ADSSL1	122622	hgsc.bcm.edu	37	14	105207040	105207040	+	Silent	SNP	C	C	T	rs12894569	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	54	109	0	0.469565	0	C|0.902;T|0.098	0.098	strong	.	ADSSL1	37	.	NM_199165	exon6	c.C708T	p.S236S	GTTTTCCTCCAGG	.	PASS	Atlas-SNP
JAKMIP3	282973	hgsc.bcm.edu	37	10	133955427	133955427	+	Missense_Mutation	SNP	A	A	G	rs11592585	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	100	92	0	1	0	A|0.782;G|0.218	0.218	strong	JAKMIP3,NS,carcinoma,0,1	JAKMIP3	69	1	NM_001105521	exon10	c.A1477G	p.M493V	CAGGGCATGGCCA	.	PASS	Atlas-SNP
ADAMTS5	11096	hgsc.bcm.edu	37	21	28338423	28338423	+	Silent	SNP	C	C	G	rs55933916	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	56	194	0	0.368421	0	C|0.849;G|0.151	0.151	strong	ADAMTS5,NS,carcinoma,0,1	ADAMTS5	184	1	NM_007038	exon1	c.G288C	p.R96R	GAACCTCCGGCCG	.	PASS	Atlas-SNP
CHN2	1124	hgsc.bcm.edu	37	7	29539639	29539639	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	9	110	0	0.134328	0	.	.	none	.	CHN2	98	.	NM_004067	exon9	c.G896A	p.R299Q	GCATTCGGGAAAT	.	PASS	Atlas-SNP
MYH3	4621	hgsc.bcm.edu	37	17	10542471	10542471	+	Silent	SNP	T	T	G	rs2285475	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	182	181	0	0.994536	0	T|0.464;G|0.536	0.536	strong	MYH3,caecum,carcinoma,-1,1	MYH3	227	1	NM_002470	exon25	c.A3138C	p.R1046R	GTCTACTCGGAGC	.	PASS	Atlas-SNP
MAP4	4134	hgsc.bcm.edu	37	3	48040283	48040283	+	Missense_Mutation	SNP	C	C	T	rs11711953	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	86	145	0	0.485876	0	C|0.948;T|0.052	0.052	strong	.	MAP4	176	.	NM_001134364	exon2	c.G68A	p.R23Q	AAGTCCCGCTTTA	.	PASS	Atlas-SNP
SEMA4B	10509	hgsc.bcm.edu	37	15	90768320	90768320	+	Silent	SNP	C	C	T	rs11073918	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	61	125	0	0.586538	0	C|0.755;T|0.245	0.245	strong	.	SEMA4B	51	.	NM_020210	exon11	c.C1315T	p.L439L	ATGCTGCTGCTGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515449	195515449	+	Missense_Mutation	SNP	A	A	T	rs200672669	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	22	593	14	0.105769	0.0236088	A|0.956;G|0.036;T|0.008	0.008	strong	MUC4_ENST00000463781,NS,carcinoma,0,12	MUC4	1505	12	NM_018406	exon2	c.T3002A	p.V1001E	GTGGATACTGAGG	.	scavenged	Atlas-SNP
OR10G2	26534	hgsc.bcm.edu	37	14	22102745	22102745	+	Missense_Mutation	SNP	C	C	A	rs41314525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	270	132	268	0	0.488889	0	C|0.782;A|0.218	0.218	strong	.	OR10G2	35	.	NM_001005466	exon1	c.G254T	p.R85L	ATAAGCCGAGGAA	.	PASS	Atlas-SNP
PIP4K2A	5305	hgsc.bcm.edu	37	10	22839628	22839628	+	Missense_Mutation	SNP	T	T	C	rs2230469	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	87	163	0	0.486034	0	T|0.753;C|0.247	0.247	strong	.	PIP4K2A	59	.	NM_005028	exon7	c.A752G	p.N251S	TTCTTGTTGTTGT	.	PASS	Atlas-SNP
MAGEB16	139604	hgsc.bcm.edu	37	X	35821127	35821127	+	Nonsense_Mutation	SNP	C	C	T	rs4829392	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	167	285	0	1	0	C|0.356;0|0.042	.	strong	.	MAGEB16	64	.	NM_001099921	exon2	c.C814T	p.R272X	CCTGCACGATATG	.	PASS	Atlas-SNP
PDS5B	23047	hgsc.bcm.edu	37	13	33232435	33232435	+	Silent	SNP	A	A	G	rs2301393	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	151	137	0	0.980519	0	A|0.686;G|0.314	0.314	strong	.	PDS5B	141	.	NM_015032	exon4	c.A372G	p.Q124Q	CCCACAATTCAAT	.	PASS	Atlas-SNP
ADSS	159	hgsc.bcm.edu	37	1	244583585	244583585	+	Missense_Mutation	SNP	T	T	C	rs55648210	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	42	56	0	0.525	0	T|0.980;C|0.020	0.020	strong	.	ADSS	49	.	NM_001126	exon8	c.A677G	p.K226R	TTAATCTTTTCCA	.	PASS	Atlas-SNP
TMPRSS11B	132724	hgsc.bcm.edu	37	4	69094507	69094507	+	Missense_Mutation	SNP	T	T	A	rs2319797	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	276	303	0	1	0	T|0.292;A|0.708	0.708	strong	.	TMPRSS11B	66	.	NM_182502	exon9	c.A1042T	p.T348S	ACATTGTATCAGT	.	PASS	Atlas-SNP
SPATA32	124783	hgsc.bcm.edu	37	17	43333125	43333125	+	Missense_Mutation	SNP	C	C	T	rs11651968	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	37	107	0	0.37	0	C|0.650;G|0.000;T|0.350	0.350	strong	.	.	.	.	NM_152343	exon4	c.G424A	p.V142M	CAGACACGTGGTT	.	PASS	Atlas-SNP
SEPT4	5414	hgsc.bcm.edu	37	17	56598991	56598991	+	Missense_Mutation	SNP	T	T	A	rs17741424	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	76	169	0	0.439306	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
PLOD3	8985	hgsc.bcm.edu	37	7	100855180	100855180	+	Silent	SNP	G	G	A	rs11546152	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	31	84	0	0.516667	0	G|0.993;A|0.007	0.007	strong	.	PLOD3	79	.	NM_001084	exon11	c.C1179T	p.A393A	AGCGTCGGCGTCC	.	PASS	Atlas-SNP
HSD17B7	51478	hgsc.bcm.edu	37	1	162775267	162775267	+	Silent	SNP	C	C	T	rs79689427	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	297	124	231	0	0.417508	0	T|1.000;|0.000	1.000	weak	.	HSD17B7	25	.	NM_016371	exon8	c.C888T	p.Y296Y	AAATTACATTATG	.	PASS	Atlas-SNP
CES1	1066	hgsc.bcm.edu	37	16	55862762	55862762	+	Silent	SNP	C	C	G	rs3826194	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	22	130	0	0.189655	0	C|0.766;G|0.234	0.234	strong	CES1_ENST00000360526,caecum,carcinoma,0,2	CES1	78	2	NM_001025195	exon2	c.G177C	p.P59P	AAGAGGCGGCTTG	.	PASS	Atlas-SNP
ROCK1	6093	hgsc.bcm.edu	37	18	18534948	18534948	+	Missense_Mutation	SNP	G	G	C	rs2847092	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	13	231	1	0.0610329	0.004329	G|0.985;C|0.015	0.015	strong	ROCK1_ENST00000399799,NS,carcinoma,0,1	ROCK1	162	1	NM_005406	exon31	c.C3649G	p.Q1217E	CAGCTTGTTGTAC	.	scavenged	Atlas-SNP
DYNC1I2	1781	hgsc.bcm.edu	37	2	172585298	172585298	+	Silent	SNP	T	T	C	rs78255103	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	338	14	356	0	0.0414201	0	T|0.333;C|0.667	0.667	strong	DYNC1I2,NS,carcinoma,0,1	DYNC1I2	43	1	NM_001378	exon14	c.T1329C	p.D443D	TGGAGATGTCAAC	.	scavenged	Atlas-SNP
ZFYVE28	57732	hgsc.bcm.edu	37	4	2341194	2341194	+	Silent	SNP	T	T	C	rs2071680	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	182	187	0	1	0	T|0.375;C|0.625	0.625	strong	.	ZFYVE28	79	.	NM_020972	exon4	c.A507G	p.A169A	AAACTCTGCGAAC	.	PASS	Atlas-SNP
NT5C	30833	hgsc.bcm.edu	37	17	73127348	73127348	+	Missense_Mutation	SNP	G	G	A	rs11541956	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	231	113	264	0	0.489177	0	G|0.983;A|0.017	0.017	strong	.	NT5C	3	.	NM_001252377	exon2	c.C203T	p.P68L	AAGCCCGGGGCTT	.	PASS	Atlas-SNP
OR13D1	286365	hgsc.bcm.edu	37	9	107457725	107457725	+	Silent	SNP	G	G	A	rs12338899	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	39	74	0	0.453488	0	G|0.786;A|0.214	0.214	strong	.	OR13D1	42	.	NM_001004484	exon1	c.G1023A	p.L341L	ACATCTGCATTTA	.	PASS	Atlas-SNP
DHCR7	1717	hgsc.bcm.edu	37	11	71146691	71146691	+	Silent	SNP	A	A	G	rs760241	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	56	55	0	0.982456	0	T|0.000;G|0.822;C|0.009;A|0.168	0.822	strong	DHCR7_ENST00000355527,NS,carcinoma,0,4	DHCR7	98	4	NM_001163817	exon9	c.T1158C	p.D386D	CTGCCCATCGGCG	.	PASS	Atlas-SNP
PADI2	11240	hgsc.bcm.edu	37	1	17396703	17396703	+	Silent	SNP	T	T	C	rs2076595	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	112	100	0	1	0	T|0.505;C|0.495	0.495	strong	.	PADI2	72	.	NM_007365	exon15	c.A1644G	p.L548L	CCAGTCTAGGCAG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1093195	1093195	+	Missense_Mutation	SNP	T	T	A	rs56096036	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	10	57	12	0.178571	0.210526	.	.	weak	MUC2_ENST00000441003,colon,carcinoma,0,2	MUC2	614	2	NM_002457	exon30	c.T5014A	p.S1672T	ACACAGTCCCCAA	.	scavenged	Atlas-SNP
ZNF845	91664	hgsc.bcm.edu	37	19	53856701	53856701	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	5	126	0	0.0359712	0	.	.	none	ZNF845,NS,carcinoma,-1,6	ZNF845	101	6	NM_138374	exon4	c.C2773T	p.R925C	ACCTTCCGTCACA	.	scavenged	Atlas-SNP
URB1	9875	hgsc.bcm.edu	37	21	33757947	33757947	+	Missense_Mutation	SNP	A	A	T	rs58978310	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	50	104	0	0.393701	0	A|0.887;T|0.113	0.113	strong	.	URB1	176	.	NM_014825	exon2	c.T189A	p.D63E	ATACACATCTTCT	.	PASS	Atlas-SNP
TPR	7175	hgsc.bcm.edu	37	1	186291512	186291512	+	Silent	SNP	T	T	C	rs10911846	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	485	192	303	0	0.395876	0	T|0.965;C|0.035	0.035	strong	.	TPR	441	.	NM_003292	exon45	c.A6399G	p.T2133T	TGGAACTGTTCTG	.	PASS	Atlas-SNP
CERK	64781	hgsc.bcm.edu	37	22	47108189	47108189	+	Silent	SNP	C	C	T	rs9616101	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	78	134	0	0.655462	0	C|0.976;T|0.024	0.024	strong	.	CERK	40	.	NM_022766	exon4	c.G381A	p.T127T	TCTGGACGCTGTA	.	PASS	Atlas-SNP
HMP19	0	hgsc.bcm.edu	37	5	173491300	173491300	+	Silent	SNP	G	G	A	rs17076802	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	55	80	0	0.670732	0	G|0.924;A|0.075	0.075	strong	.	HMP19	21	.	NM_015980	exon3	c.G195A	p.P65P	GGTGCCGAAAATC	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103385064	103385064	+	Missense_Mutation	SNP	T	T	C	rs200932361	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	77	160	0	0.423077	0	.	.	weak	.	.	.	.	NM_001146197	exon4	c.A17983G	p.K5995E	TCTCCTTCTCCAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	43	78	0	0.518072	0	C|0.611;T|0.389	0.389	strong	.	HINFP	50	.	NM_015517	exon11	c.C1478T	p.A493V	CCCCAGCCCCTGA	.	PASS	Atlas-SNP
LRRC48	83450	hgsc.bcm.edu	37	17	17896090	17896090	+	Silent	SNP	C	C	T	rs4368210	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	52	99	0	0.452174	0	C|0.475;T|0.525	0.525	strong	.	LRRC48	49	.	NM_031294	exon6	c.C456T	p.L152L	CTACCTCCGGCGG	.	PASS	Atlas-SNP
TENM4	26011	hgsc.bcm.edu	37	11	78380199	78380199	+	Silent	SNP	C	C	T	rs61745709	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	88	195	0	0.453608	0	C|0.950;T|0.050	0.050	strong	.	.	.	.	NM_001098816	exon32	c.G7191A	p.Q2397Q	GATGATCTGAAAG	.	PASS	Atlas-SNP
UNC13C	440279	hgsc.bcm.edu	37	15	54841874	54841874	+	Silent	SNP	A	A	G	rs9302181	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	58	58	0	0.983051	0	A|0.596;G|0.404	0.404	strong	.	UNC13C	674	.	NM_001080534	exon26	c.A5862G	p.Q1954Q	TGGACAATTATCC	.	PASS	Atlas-SNP
PELI1	57162	hgsc.bcm.edu	37	2	64327544	64327544	+	Silent	SNP	G	G	T	rs329498	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	126	109	1	1	0.00917431	T|0.297;G|0.703;C|0.000	0.297	strong	.	PELI1	34	.	NM_020651	exon4	c.C291A	p.T97T	CATATCGGTGTTG	.	PASS	Atlas-SNP
ZNF180	7733	hgsc.bcm.edu	37	19	45001346	45001346	+	Missense_Mutation	SNP	G	G	A	rs2571108	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	32	38	0	1	0	G|0.703;A|0.297	0.297	strong	ZNF180,colon,carcinoma,0,1	ZNF180	103	1	NM_013256	exon2	c.C122T	p.A41V	GCACAGGCCTTCG	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50572473	50572473	+	Missense_Mutation	SNP	G	G	A	rs2340601	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	78	112	0	0.742857	0	G|0.776;A|0.224	0.224	strong	MOV10L1,NS,carcinoma,0,1	MOV10L1	238	1	NM_018995	exon14	c.G1948A	p.V650I	GAACACGTCATCC	.	PASS	Atlas-SNP
SLC35G6	643664	hgsc.bcm.edu	37	17	7385454	7385454	+	Missense_Mutation	SNP	G	G	A	rs3760422	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	62	189	0	0.488189	0	G|0.841;A|0.159	0.159	strong	.	.	.	.	NM_001102614	exon2	c.G151A	p.A51T	CTGCCTGCTGGCT	.	PASS	Atlas-SNP
SPTBN4	57731	hgsc.bcm.edu	37	19	40978640	40978640	+	Missense_Mutation	SNP	G	G	A	rs73931308	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	80	157	0	0.512821	0	G|0.811;A|0.189	0.189	strong	SPTBN4,colon,carcinoma,-2,3	SPTBN4	213	3	NM_020971	exon2	c.G112A	p.A38T	CAGCCGGCTGCGT	.	PASS	Atlas-SNP
HDAC9	9734	hgsc.bcm.edu	37	7	18993870	18993870	+	Silent	SNP	C	C	T	rs2389998	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	44	69	0	0.488889	0	C|0.237;T|0.763	0.763	strong	.	HDAC9	560	.	NM_058176	exon23	c.C3030T	p.F1010F	AAAGTTCTCTTAA	.	PASS	Atlas-SNP
GBP7	388646	hgsc.bcm.edu	37	1	89599070	89599070	+	Silent	SNP	T	T	C	rs151091316		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	568	87	508	0	0.153169	0	.	.	weak	.	GBP7	57	.	NM_207398	exon10	c.A1533G	p.E511E	CTGCTGTTCCTTC	.	PASS	Atlas-SNP
CATSPER1	117144	hgsc.bcm.edu	37	11	65793454	65793454	+	Missense_Mutation	SNP	C	C	T	rs1203998	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	54	105	0	0.45	0	C|0.656;T|0.344	0.344	strong	.	CATSPER1	101	.	NM_053054	exon1	c.G397A	p.G133S	ACCCACCGTATTG	.	PASS	Atlas-SNP
P2RY2	5029	hgsc.bcm.edu	37	11	72946204	72946204	+	Missense_Mutation	SNP	C	C	T	rs1626154	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	47	54	0	0.903846	0	C|0.873;T|0.127	0.127	strong	.	P2RY2	54	.	NM_176071	exon3	c.C1000T	p.R334C	GCTCGCCGCAGGC	.	PASS	Atlas-SNP
SERPINA11	256394	hgsc.bcm.edu	37	14	94912799	94912799	+	Silent	SNP	G	G	A	rs12888805	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	111	204	0	0.5311	0	G|0.707;A|0.293	0.293	strong	SERPINA11,right_lower_lobe,carcinoma,-1,1	SERPINA11	53	1	NM_001080451	exon3	c.C786T	p.T262T	GAGGACGGTGCAA	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	50025446	50025446	+	Missense_Mutation	SNP	G	G	T	rs12268007	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	25	56	0	0.438596	0	G|0.836;T|0.164	0.164	strong	.	WDFY4	205	.	NM_020945	exon32	c.G5497T	p.A1833S	CTGGGAGCCCAAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	44	94	0	0.478261	0	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	.	PASS	Atlas-SNP
LCT	3938	hgsc.bcm.edu	37	2	136594158	136594158	+	Silent	SNP	G	G	A	rs2236783	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	219	206	0	1	0	G|0.584;A|0.416	0.416	strong	.	LCT	309	.	NM_002299	exon1	c.C582T	p.T194T	ACTGAGGGTCTGG	.	PASS	Atlas-SNP
DOM3Z	1797	hgsc.bcm.edu	37	6	31939319	31939319	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	35	90	0	0.29661	0	.	.	none	.	DOM3Z	20	.	NM_005510	exon2	c.G134A	p.R45H	GAAGGGCGCCGGT	.	PASS	Atlas-SNP
CALCR	799	hgsc.bcm.edu	37	7	93055753	93055753	+	Missense_Mutation	SNP	A	A	G	rs1801197	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	189	156	0	1	0	A|0.561;G|0.439	0.439	strong	CALCR_ENST00000359558,NS,adenoma,0,2	CALCR	200	2	NM_001164737	exon16	c.T1442C	p.L481P	TTCCTCAGCTCCT	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744794	54744794	+	Missense_Mutation	SNP	G	G	A	rs76869766	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	646	152	477	0	0.235294	0	G|0.857;A|0.143	0.143	strong	.	LILRA6	75	.	NM_024318	exon5	c.C868T	p.H290Y	CCCCGTGGGAGGG	.	PASS	Atlas-SNP
FOXD4L1	200350	hgsc.bcm.edu	37	2	114257443	114257443	+	Missense_Mutation	SNP	A	A	C	rs377465547		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	14	81	1	0.25	0.0123457	.	.	weak	FOXD4L1,NS,carcinoma,0,1	FOXD4L1	48	1	NM_012184	exon1	c.A610C	p.K204Q	CGTTTCAAGCGCC	.	scavenged	Atlas-SNP
ETS2	2114	hgsc.bcm.edu	37	21	40191638	40191638	+	Silent	SNP	A	A	G	rs461155	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	60	62	0	1	0	A|0.297;G|0.703	0.703	strong	.	ETS2	87	.	NM_001256295	exon9	c.A1443G	p.P481P	TGACCCAGTGGAG	.	PASS	Atlas-SNP
BTN3A1	11119	hgsc.bcm.edu	37	6	26409890	26409890	+	Missense_Mutation	SNP	G	G	C	rs41266839	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	48	63	0	0.631579	0	G|0.951;C|0.049	0.049	strong	.	BTN3A1	80	.	NM_007048	exon5	c.G845C	p.R282T	AGTTCAGAAAGAA	.	PASS	Atlas-SNP
TIRAP	114609	hgsc.bcm.edu	37	11	126162468	126162468	+	Missense_Mutation	SNP	G	G	A	rs3802813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	55	119	0	0.478261	0	G|0.936;A|0.064	0.064	strong	.	TIRAP	37	.	NM_148910	exon5	c.G164A	p.S55N	AGGACAGCCCACT	.	PASS	Atlas-SNP
C1orf111	284680	hgsc.bcm.edu	37	1	162344069	162344069	+	Silent	SNP	G	G	A	rs13823	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	59	123	0	0.357576	0	G|0.952;A|0.048	0.048	strong	.	C1orf111	26	.	NM_182581	exon3	c.C555T	p.C185C	GGCCACGCACTTG	.	PASS	Atlas-SNP
LRRC55	219527	hgsc.bcm.edu	37	11	56954846	56954846	+	Silent	SNP	C	C	T	rs716745	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	209	232	1	0.985849	0.00431034	C|0.718;T|0.282	0.282	strong	.	LRRC55	52	.	NM_001005210	exon2	c.C918T	p.F306F	TGCGTTCGTGGGC	.	PASS	Atlas-SNP
L1TD1	54596	hgsc.bcm.edu	37	1	62675619	62675619	+	Silent	SNP	C	C	T	rs4625314	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	131	240	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
MICA	100507436	hgsc.bcm.edu	37	6	31378956	31378956	+	Missense_Mutation	SNP	C	C	G	rs1051790	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	107	162	0	0.502347	0	C|0.812;G|0.188	0.188	strong	.	MICA	21	.	NM_001177519	exon3	c.C433G	p.L145V	CAAAACCTGGAGA	.	PASS	Atlas-SNP
VAV1	7409	hgsc.bcm.edu	37	19	6850767	6850767	+	Missense_Mutation	SNP	C	C	T	rs36097961	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	40	77	0	0.5	0	C|0.956;T|0.044	0.044	strong	VAV1,NS,carcinoma,+1,1	VAV1	140	1	NM_005428	exon24	c.C2216T	p.T739M	GGCTTACGGTAAG	.	PASS	Atlas-SNP
TRIM26	7726	hgsc.bcm.edu	37	6	30164497	30164497	+	Silent	SNP	G	G	A	rs61748990	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	65	90	0	0.532787	0	G|0.967;A|0.033	0.033	strong	.	TRIM26	74	.	NM_001242783	exon5	c.C561T	p.Y187Y	CACAATGTACTGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	90	169	1	0.508475	0.00591716	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	.	scavenged	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	37	19	17737486	17737486	+	Silent	SNP	G	G	A	rs113693450	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	49	71	0	0.544444	0	G|0.971;A|0.029	0.029	strong	UNC13A_ENST00000519716,NS,carcinoma,0,2	UNC13A	299	2	NM_001080421	exon33	c.C4029T	p.D1343D	GTCCGCGTCCTGG	.	PASS	Atlas-SNP
ADARB2	105	hgsc.bcm.edu	37	10	1230850	1230850	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	2	177	0	0.0107527	0	.	.	none	ADARB2,NS,carcinoma,+1,1	ADARB2	95	1	NM_018702	exon9	c.G1994A	p.R665Q	CAGAGCCGGGATG	.	scavenged	Atlas-SNP
TMEM161B	153396	hgsc.bcm.edu	37	5	87498849	87498849	+	Silent	SNP	G	G	A	rs3097146	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	205	207	0	0.995146	0	G|0.530;A|0.470	0.470	strong	.	TMEM161B	46	.	NM_153354	exon9	c.C844T	p.L282L	AGAGCAGAACCAT	.	PASS	Atlas-SNP
ZNF696	79943	hgsc.bcm.edu	37	8	144378184	144378184	+	Silent	SNP	C	C	G	rs2235115	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	29	22	32	0	0.758621	0	C|0.518;G|0.482	0.482	strong	.	ZNF696	18	.	NM_030895	exon3	c.C339G	p.G113G	CCCCGGCGCAGAG	.	PASS	Atlas-SNP
SLC22A18	5002	hgsc.bcm.edu	37	11	2943671	2943671	+	Missense_Mutation	SNP	G	G	C	rs1129782	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	69	128	0	0.433962	0	G|0.866;C|0.134	0.134	strong	.	SLC22A18	20	.	NM_002555	exon10	c.G972C	p.W324C	GGCCTGGATGTCC	.	PASS	Atlas-SNP
DTX4	23220	hgsc.bcm.edu	37	11	58940278	58940278	+	Silent	SNP	G	G	T	rs12796683	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	51	146	0	0.432203	0	G|0.762;T|0.238	0.238	strong	.	DTX4	84	.	NM_015177	exon1	c.G210T	p.T70T	AGACACGGGTGAG	.	PASS	Atlas-SNP
OPRL1	4987	hgsc.bcm.edu	37	20	62729431	62729431	+	Silent	SNP	C	C	T	rs2229205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	82	146	0	0.532468	0	C|0.861;T|0.139	0.139	strong	.	OPRL1	47	.	NM_000913	exon3	c.C510T	p.V170V	GGCTGTCAATGTG	.	PASS	Atlas-SNP
SREBF1	6720	hgsc.bcm.edu	37	17	17723595	17723595	+	Missense_Mutation	SNP	G	G	A	rs115855236	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	50	81	0	0.520833	0	G|0.999;A|0.001	0.001	strong	.	SREBF1	47	.	NM_001005291	exon3	c.C422T	p.P141L	ATGGACGGGTACA	.	PASS	Atlas-SNP
RNF5	6048	hgsc.bcm.edu	37	6	32147696	32147696	+	Silent	SNP	G	G	A	rs3130349	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	304	131	240	0	0.430921	0	G|0.863;A|0.137	0.137	strong	.	RNF5	16	.	NM_006913	exon4	c.G315A	p.P105P	AGCTCCGGAGAGC	.	PASS	Atlas-SNP
DUOX2	50506	hgsc.bcm.edu	37	15	45397993	45397993	+	Missense_Mutation	SNP	C	C	T	rs138353181	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	71	142	0	0.525926	0	C|0.993;T|0.007	0.007	strong	.	DUOX2	137	.	NM_014080	exon18	c.G2182A	p.A728T	CAAAGGCGCCCCG	.	PASS	Atlas-SNP
RAD51B	5890	hgsc.bcm.edu	37	14	68353893	68353893	+	Missense_Mutation	SNP	A	A	G	rs34594234	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	67	110	0	0.440789	0	A|0.992;G|0.008	0.008	strong	.	RAD51B	80	.	NM_133509	exon7	c.A728G	p.K243R	CCTTGAAGTATTT	.	PASS	Atlas-SNP
BANK1	55024	hgsc.bcm.edu	37	4	102839287	102839287	+	Missense_Mutation	SNP	G	G	A	rs3733197	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	72	142	0	0.476821	0	G|0.725;A|0.275	0.275	strong	.	BANK1	95	.	NM_017935	exon7	c.G1147A	p.A383T	GACCCCGCACATA	.	PASS	Atlas-SNP
SAGE1	55511	hgsc.bcm.edu	37	X	134978425	134978425	+	Silent	SNP	G	G	A	rs5930805	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	247	458	0	1	0	G|0.792;A|0.208	0.208	strong	.	SAGE1	160	.	NM_018666	exon2	c.G24A	p.T8T	TCAAACGAGTCAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235	104	251	0	0.442553	0	G|0.758;T|0.242	0.242	strong	.	MUC16	4315	.	NM_024690	exon3	c.C12496A	p.H4166N	TAGCATGGATAGG	.	PASS	Atlas-SNP
OR1L8	138881	hgsc.bcm.edu	37	9	125330125	125330125	+	Missense_Mutation	SNP	C	C	G	rs10739614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	45	76	0	0.505618	0	C|0.330;G|0.670	0.670	strong	.	OR1L8	90	.	NM_001004454	exon1	c.G632C	p.R211P	AGAAAACGAGTCA	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26193982	26193982	+	Silent	SNP	C	C	G	rs738642	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	142	131	0	1	0	C|0.318;G|0.682	0.682	strong	.	MYO18B	322	.	NM_032608	exon12	c.C2439G	p.L813L	GATGCTCGGCATC	.	PASS	Atlas-SNP
CIC	23152	hgsc.bcm.edu	37	19	42799049	42799049	+	Silent	SNP	C	C	T	rs1052023	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	23	31	0	1	0	C|0.756;T|0.244	0.244	strong	.	CIC	249	.	NM_015125	exon20	c.C4533T	p.I1511I	GAAGATCCGTGAG	.	PASS	Atlas-SNP
TMEM194B	100131211	hgsc.bcm.edu	37	2	191379211	191379211	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	360	4	287	0	0.0111111	0	.	.	none	TMEM194B_ENST00000409150,NS,carcinoma,-2,2	TMEM194B	18	2	NM_001142645	exon7	c.C921T	p.H307H	TGGGTAGTGCAGA	.	scavenged	Atlas-SNP
MPPED2	744	hgsc.bcm.edu	37	11	30433028	30433028	+	Missense_Mutation	SNP	G	G	A	rs146268212		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	46	121	0	0.455446	0	G|1.000;A|0.000	0.000	weak	.	MPPED2	106	.	NM_001584	exon6	c.C872T	p.P291L	CCCTGTGGGTTTG	.	PASS	Atlas-SNP
UCK1	83549	hgsc.bcm.edu	37	9	134406071	134406071	+	Missense_Mutation	SNP	C	C	G	rs7867616	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	103	90	0	1	0	C|0.139;G|0.861	0.861	strong	.	UCK1	29	.	NM_001261451	exon2	c.G85C	p.E29Q	ACCGCTCGTCCTG	.	PASS	Atlas-SNP
OR51I1	390063	hgsc.bcm.edu	37	11	5461991	5461991	+	Missense_Mutation	SNP	C	C	A	rs1498486	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	160	138	0	0.993789	0	C|0.614;A|0.386	0.386	strong	OR51I1,colon,carcinoma,+1,1	OR51I1	66	1	NM_001005288	exon1	c.G754T	p.A252S	AAAAGGCCAGCAC	.	PASS	Atlas-SNP
GPR157	80045	hgsc.bcm.edu	37	1	9165669	9165669	+	Missense_Mutation	SNP	G	G	A	rs12075362	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	118	174	0	0.567308	0	G|0.949;A|0.051	0.051	strong	.	GPR157	14	.	NM_024980	exon3	c.C668T	p.A223V	TTGTCCGCCATGG	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42160635	42160635	+	Silent	SNP	C	C	G	rs2290556	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	67	209	0	0.437909	0	C|0.939;G|0.061	0.061	strong	.	SPTBN5	171	.	NM_016642	exon33	c.G5913C	p.G1971G	CTGCTGCCCCAGC	.	PASS	Atlas-SNP
ABCF2	10061	hgsc.bcm.edu	37	7	150916228	150916228	+	Silent	SNP	G	G	A	rs6949587	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	43	111	0	0.518072	0	G|0.611;A|0.389	0.389	strong	.	ABCF2	54	.	NM_007189	exon8	c.C939T	p.Y313Y	CTTCACGTACTGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505851	195505851	+	Silent	SNP	T	T	C	rs200522168		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	38	247	4	0.16309	0.0161943	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.A12600G	p.S4200S	GGATGCTGAGGAA	.	scavenged	Atlas-SNP
OR52L1	338751	hgsc.bcm.edu	37	11	6007613	6007613	+	Missense_Mutation	SNP	T	T	G	rs4354673	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	255	235	0	0.996094	0	T|0.269;G|0.731	0.731	strong	.	OR52L1	100	.	NM_001005173	exon1	c.A548C	p.K183T	ATAAGTTTTCCCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	37	70	0	0.578125	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
OCEL1	79629	hgsc.bcm.edu	37	19	17337928	17337928	+	Silent	SNP	C	C	T	rs1045201	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	51	89	1	0.586207	0.011236	C|0.914;T|0.086	0.086	strong	OCEL1,colon,carcinoma,0,1	OCEL1	20	1	NM_024578	exon3	c.C372T	p.A124A	CCAGGCCCTCCTG	.	scavenged	Atlas-SNP
NPBWR2	2832	hgsc.bcm.edu	37	20	62737537	62737537	+	Silent	SNP	C	C	A	rs4809400	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	36	103	0	0.45	0	C|0.908;A|0.092	0.092	strong	.	NPBWR2	36	.	NM_005286	exon1	c.G648T	p.T216T	GACCAACGTGTAG	.	PASS	Atlas-SNP
MEOX1	4222	hgsc.bcm.edu	37	17	41738823	41738823	+	Missense_Mutation	SNP	G	G	A	rs9898682	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	56	116	1	0.491228	0.00862069	G|0.889;A|0.111	0.111	strong	MEOX1,NS,carcinoma,0,1	MEOX1	29	1	NM_004527	exon1	c.C80T	p.S27L	CCTTCCGAGTGGG	.	scavenged	Atlas-SNP
GRAMD3	65983	hgsc.bcm.edu	37	5	125802027	125802027	+	Missense_Mutation	SNP	G	G	A	rs62394179	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	109	193	0	0.511737	0	G|0.787;A|0.213	0.213	strong	.	GRAMD3	30	.	NM_001146321	exon3	c.G226A	p.E76K	GACCAAGAGTAAG	.	PASS	Atlas-SNP
SLC13A5	284111	hgsc.bcm.edu	37	17	6599095	6599095	+	Silent	SNP	G	G	A	rs56224509	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	88	131	0	0.526946	0	G|0.937;A|0.063	0.063	strong	.	SLC13A5	57	.	NM_001143838	exon7	c.C1005T	p.P335P	GAAGCCGGGGTCT	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33659472	33659472	+	Missense_Mutation	SNP	C	C	G	rs2229642	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	384	383	347	0	0.997396	0	C|0.521;G|0.478	0.478	strong	.	ITPR3	409	.	NM_002224	exon53	c.C7306G	p.L2436V	TCAGGGCTCTCGG	.	PASS	Atlas-SNP
CCDC111	201973	hgsc.bcm.edu	37	4	185615764	185615764	+	Missense_Mutation	SNP	C	C	A	rs14969	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	105	210	1	0.481651	0.0047619	C|0.824;A|0.176	0.176	strong	.	CCDC111	43	.	NM_152683	exon14	c.C1514A	p.T505K	TGTCAACAGGTGC	.	PASS	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	37	9	136268912	136268912	+	Silent	SNP	A	A	G	rs28510482	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	33	62	0	0.559322	0	A|0.830;G|0.170	0.170	strong	.	C9orf96	77	.	NM_153710	exon15	c.A1563G	p.A521A	AATGGCAGAAGCC	.	PASS	Atlas-SNP
ACOX2	8309	hgsc.bcm.edu	37	3	58517520	58517520	+	Silent	SNP	A	A	G	rs57216393	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	29	70	0	0.453125	0	A|0.923;G|0.077	0.077	strong	.	ACOX2	53	.	NM_003500	exon6	c.T603C	p.H201H	CAGGGCATGGGTG	.	PASS	Atlas-SNP
FAM177B	400823	hgsc.bcm.edu	37	1	222919895	222919895	+	Missense_Mutation	SNP	T	T	G	rs2378607	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	39	95	0	0.419355	0	T|0.421;G|0.579	0.579	strong	.	FAM177B	19	.	NM_207468	exon3	c.T8G	p.I3S	TGGAGATTGACGG	.	PASS	Atlas-SNP
RHOT2	89941	hgsc.bcm.edu	37	16	720986	720986	+	Missense_Mutation	SNP	G	G	A	rs1139897	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	13	60	0	0.481481	0	G|0.755;A|0.245	0.245	strong	.	RHOT2	35	.	NM_138769	exon10	c.G734A	p.R245Q	AGGACCGGCTGAC	.	PASS	Atlas-SNP
SUN1	23353	hgsc.bcm.edu	37	7	897492	897492	+	Silent	SNP	A	A	G	rs10950789	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	53	125	0	0.452991	0	A|0.604;G|0.396	0.396	strong	.	SUN1	157	.	NM_001130965	exon13	c.A1422G	p.T474T	GCCCACAGTCGAG	.	PASS	Atlas-SNP
ANO2	57101	hgsc.bcm.edu	37	12	5744495	5744495	+	Missense_Mutation	SNP	T	T	C	rs200078432	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	42	73	0	0.5	0	T|0.997;C|0.003	0.003	strong	.	ANO2	309	.	NM_020373	exon17	c.A1639G	p.I547V	AGACGATTGAGAA	.	PASS	Atlas-SNP
DCUN1D3	123879	hgsc.bcm.edu	37	16	20873767	20873767	+	Silent	SNP	T	T	G	rs7187522	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	41	71	0	0.554054	0	T|0.408;G|0.592	0.592	strong	.	DCUN1D3	29	.	NM_173475	exon2	c.A94C	p.R32R	CACCCCTCCTGCT	.	PASS	Atlas-SNP
MAGEA6	4105	hgsc.bcm.edu	37	X	151869745	151869745	+	Silent	SNP	C	C	T	rs7057497	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	270	736	0	0.99631	0	C|0.838;T|0.162	0.162	strong	.	MAGEA6	53	.	NM_005363	exon3	c.C435T	p.Y145Y	GCAGTACTTCTTT	.	PASS	Atlas-SNP
KIAA1456	57604	hgsc.bcm.edu	37	8	12878830	12878830	+	Silent	SNP	C	C	T	rs3739309	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	75	156	0	0.506757	0	C|0.651;T|0.349	0.349	strong	.	KIAA1456	20	.	NM_020844	exon5	c.C642T	p.S214S	CCACAGCGTGGGC	.	PASS	Atlas-SNP
RHBDL2	54933	hgsc.bcm.edu	37	1	39352271	39352271	+	Missense_Mutation	SNP	G	G	T	rs2147914	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	39	115	0	0.453488	0	G|0.652;T|0.348	0.348	strong	RHBDL2,bladder,carcinoma,+2,1	RHBDL2	28	1	NM_017821	exon8	c.C817A	p.L273M	CTTTCAGCAGTGC	.	PASS	Atlas-SNP
CD80	941	hgsc.bcm.edu	37	3	119263680	119263680	+	Silent	SNP	C	C	T	rs2228017	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	125	292	0	0.504032	0	C|0.766;T|0.234	0.234	strong	.	CD80	35	.	NM_005191	exon3	c.G135A	p.V45V	CGTTGCCACTTCT	.	PASS	Atlas-SNP
PUSL1	126789	hgsc.bcm.edu	37	1	1246303	1246303	+	Silent	SNP	G	G	A	rs41285824	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	69	209	0	0.346734	0	G|0.979;A|0.021	0.021	strong	.	PUSL1	12	.	NM_153339	exon7	c.G714A	p.T238T	GATGACGGCTGTG	.	PASS	Atlas-SNP
DERA	51071	hgsc.bcm.edu	37	12	16189279	16189279	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	33	88	0	0.428571	0	.	.	none	.	DERA	20	.	NM_015954	exon8	c.A864G	p.I288M	TCGAATAGGTGCC	.	PASS	Atlas-SNP
RNF175	285533	hgsc.bcm.edu	37	4	154644537	154644537	+	Missense_Mutation	SNP	T	T	C	rs10517577	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	70	103	0	0.530303	0	T|0.917;C|0.083	0.083	strong	.	RNF175	40	.	NM_173662	exon5	c.A475G	p.M159V	TAAACATGATCGC	.	PASS	Atlas-SNP
ZNF133	7692	hgsc.bcm.edu	37	20	18296076	18296076	+	Missense_Mutation	SNP	G	G	A	rs2228273	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	22	59	0	0.44898	0	A|0.112;C|0.006	0.112	strong	.	ZNF133	63	.	NM_001083330	exon4	c.G578A	p.G193E	AGTCAGGGAACCC	.	PASS	Atlas-SNP
THAP9	79725	hgsc.bcm.edu	37	4	83838262	83838262	+	Missense_Mutation	SNP	G	G	T	rs897945	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	63	124	0	0.512195	0	G|0.624;T|0.375	0.375	strong	THAP9,colon,carcinoma,+2,1	THAP9	65	1	NM_024672	exon5	c.G897T	p.L299F	CAGTTTGCAGGGG	.	PASS	Atlas-SNP
PNLIPRP3	119548	hgsc.bcm.edu	37	10	118228763	118228763	+	Missense_Mutation	SNP	T	T	C	rs7077408	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	44	96	0	0.423077	0	T|0.839;C|0.161	0.161	strong	.	PNLIPRP3	101	.	NM_001011709	exon9	c.T994C	p.F332L	TTTCACTTCAAAA	.	PASS	Atlas-SNP
AVIL	10677	hgsc.bcm.edu	37	12	58204145	58204145	+	Missense_Mutation	SNP	T	T	C	rs112269561	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	77	206	0	0.385	0	T|0.999;C|0.001	0.001	strong	.	AVIL	60	.	NM_006576	exon6	c.A748G	p.I250V	ACATGATAGTTGA	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	37	1	43664218	43664218	+	Silent	SNP	C	C	T	rs603123	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	55	107	0	0.55	0	C|0.742;T|0.258	0.258	strong	.	WDR65	76	.	NM_152498	exon8	c.C1329T	p.H443H	TGGACACTTCATT	.	PASS	Atlas-SNP
PLEKHG1	57480	hgsc.bcm.edu	37	6	151152059	151152059	+	Silent	SNP	G	G	A	rs2073065	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	24	64	0	0.393443	0	G|0.882;A|0.118	0.118	strong	.	PLEKHG1	97	.	NM_001029884	exon16	c.G1812A	p.R604R	TCACAGGATTGTC	.	PASS	Atlas-SNP
TYRO3	7301	hgsc.bcm.edu	37	15	41860490	41860490	+	Missense_Mutation	SNP	T	T	A	rs12148316	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	76	158	0	0.358491	0	T|0.803;A|0.197	0.197	strong	TYRO3_ENST00000263798,colon,carcinoma,0,2	TYRO3	169	2	NM_006293	exon8	c.T1037A	p.I346N	AAGTGATCCCCGA	.	PASS	Atlas-SNP
TRPV3	162514	hgsc.bcm.edu	37	17	3447914	3447914	+	Silent	SNP	C	C	T	rs1039519	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	20	27	0	1	0	C|0.383;T|0.617	0.617	strong	.	TRPV3	85	.	NM_001258205	exon4	c.G270A	p.Q90Q	ATCATCCTGAGGA	.	PASS	Atlas-SNP
AKD1	221264	hgsc.bcm.edu	37	6	109894773	109894773	+	Missense_Mutation	SNP	T	T	A	rs12175588	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	36	127	0	0.36	0	T|0.780;A|0.220	0.220	strong	.	AKD1	223	.	NM_001145128	exon21	c.A2216T	p.D739V	TCTTCATCCTCAT	.	PASS	Atlas-SNP
ARHGAP42	143872	hgsc.bcm.edu	37	11	100803982	100803982	+	Silent	SNP	C	C	T	rs79213484	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	75	109	0	0.568182	0	C|0.983;T|0.017	0.017	strong	.	ARHGAP42	32	.	NM_152432	exon7	c.C693T	p.N231N	GTTCAACTTGCAG	.	PASS	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96506664	96506664	+	Silent	SNP	A	A	G	rs11070154	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	90	178	0	0.497238	0	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	.	PASS	Atlas-SNP
FRA10AC1	118924	hgsc.bcm.edu	37	10	95458141	95458141	+	Silent	SNP	A	A	G	rs11187597	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	109	68	0	1	0	A|0.613;G|0.387	0.387	strong	.	FRA10AC1	68	.	NM_145246	exon3	c.T90C	p.D30D	TAAGTCATCTTCA	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239049	31239049	+	Silent	SNP	G	G	T	rs1065406	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	51	318	0	0.238318	0	T|0.055;G|0.945	0.055	strong	.	HLA-C	92	.	NM_002117	exon3	c.C420A	p.S140S	GTAGGCGGACTGG	.	PASS	Atlas-SNP
PLXNA4	91584	hgsc.bcm.edu	37	7	132070054	132070054	+	Missense_Mutation	SNP	T	T	C	rs741664	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	39	71	0	0.590909	0	C|0.318;N|0.000	0.318	strong	.	PLXNA4	873	.	NM_001105543	exon4	c.A1372G	p.M458V	CAGGCATCTGGAA	.	PASS	Atlas-SNP
NLRP14	338323	hgsc.bcm.edu	37	11	7079038	7079038	+	Missense_Mutation	SNP	G	G	A	rs10839708	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	458	217	478	0	0.473799	0	G|0.472;A|0.528	0.528	strong	.	NLRP14	187	.	NM_176822	exon7	c.G2422A	p.E808K	TTGTGTGAGGCCT	.	PASS	Atlas-SNP
MAP1A	4130	hgsc.bcm.edu	37	15	43818959	43818959	+	Missense_Mutation	SNP	C	C	G	rs375898111		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	46	87	0	0.433962	0	.	.	weak	.	MAP1A	189	.	NM_002373	exon4	c.C5288G	p.P1763R	CCTCACCACAGAA	.	PASS	Atlas-SNP
SDCBP2	27111	hgsc.bcm.edu	37	20	1293247	1293247	+	Missense_Mutation	SNP	C	C	T	rs2273959	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	139	142	0	0.992857	0	C|0.592;T|0.408	0.408	strong	SDCBP2,NS,carcinoma,0,1	SDCBP2	78	1	NM_080489	exon6	c.G544A	p.V182M	CCACCACGACAAT	.	PASS	Atlas-SNP
MCF2	4168	hgsc.bcm.edu	37	X	138679712	138679712	+	Silent	SNP	T	T	A	rs1051619	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	185	360	0	0.994624	0	T|0.720;0|0.003	.	strong	.	MCF2	432	.	NM_001171876	exon22	c.A2190T	p.G730G	AGCAGATCCTTCA	.	PASS	Atlas-SNP
SLC40A1	30061	hgsc.bcm.edu	37	2	190430177	190430177	+	Silent	SNP	A	A	G	rs2304704	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	60	101	0	0.521739	0	A|0.460;G|0.540	0.540	strong	.	SLC40A1	51	.	NM_014585	exon6	c.T663C	p.V221V	GAGCAGAACGTAC	.	PASS	Atlas-SNP
GRIN3A	116443	hgsc.bcm.edu	37	9	104433034	104433034	+	Silent	SNP	A	A	G	rs10512285	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	109	189	0	0.573684	0	A|0.698;G|0.302	0.302	strong	.	GRIN3A	186	.	NM_133445	exon3	c.T1660C	p.L554L	TGTCCAATGTGGA	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	145011204	145011204	+	Silent	SNP	A	A	G	rs6993938	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	65	166	0	0.422078	0	A|0.729;C|0.001;G|0.270	0.270	strong	PLEC_ENST00000436759,NS,carcinoma,-2,8	PLEC	1144	8	NM_201380	exon5	c.T789C	p.A263A	GCCGTCAGCGATG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	95	146	0	0.502645	0	G|0.596;N|0.000	.	strong	.	RREB1	242	.	NM_001003700	exon8	c.G583A	p.G195R	GAAGACGGGCAGT	.	PASS	Atlas-SNP
ATP2C2	9914	hgsc.bcm.edu	37	16	84432176	84432176	+	Silent	SNP	G	G	A	rs4782948	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	25	53	0	0.373134	0	G|0.974;A|0.026	0.026	strong	.	ATP2C2	75	.	NM_014861	exon2	c.G171A	p.A57A	GGAAGCGTGCAAA	.	PASS	Atlas-SNP
PCDHB16	57717	hgsc.bcm.edu	37	5	140564088	140564088	+	Missense_Mutation	SNP	C	C	T	rs79316113		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	14	13	63	0	0.928571	0	.	.	weak	.	PCDHB16	159	.	NM_020957	exon1	c.C1954T	p.R652C	CCTCCGCGCTCGG	.	PASS	Atlas-SNP
NOL6	65083	hgsc.bcm.edu	37	9	33467397	33467397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	30	153	0	0.181818	0	.	.	none	.	NOL6	85	.	NM_022917	exon13	c.C1720T	p.P574S	CCTCAGGCTGGTC	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745821	50745821	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	24	197	0	0.0944882	0	.	.	none	FAM186A_ENST00000327337,NS,carcinoma,-1,6	FAM186A	181	6	NM_001145475	exon4	c.A4794T	p.E1598D	CCCCAGTTCCTGC	.	PASS	Atlas-SNP
GRN	2896	hgsc.bcm.edu	37	17	42427630	42427630	+	Silent	SNP	T	T	C	rs25646	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	72	151	0	0.447205	0	T|0.946;C|0.054	0.054	strong	.	GRN	51	.	NM_002087	exon5	c.T384C	p.D128D	CCCTGATAGTCAG	.	PASS	Atlas-SNP
CALCOCO2	10241	hgsc.bcm.edu	37	17	46926615	46926615	+	Missense_Mutation	SNP	G	G	A	rs550510	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	69	138	0	0.466216	0	G|0.815;A|0.185	0.185	strong	CALCOCO2,NS,carcinoma,0,1	CALCOCO2	29	1	NM_001261390	exon6	c.G491A	p.G164E	TGTAGGGAGAGGT	.	PASS	Atlas-SNP
SPAG5	10615	hgsc.bcm.edu	37	17	26919344	26919344	+	Silent	SNP	T	T	C	rs113667723	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	64	103	0	0.516129	0	T|0.992;C|0.008	0.008	strong	.	SPAG5	92	.	NM_006461	exon3	c.A918G	p.T306T	CAGGCATGTGGAC	.	PASS	Atlas-SNP
EEPD1	80820	hgsc.bcm.edu	37	7	36327317	36327317	+	Missense_Mutation	SNP	C	C	T	rs196594	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	68	166	0	0.53125	0	C|0.925;T|0.075	0.075	strong	.	EEPD1	47	.	NM_030636	exon6	c.C1246T	p.P416S	GAGAATCCCAGCA	.	PASS	Atlas-SNP
OR7D2	162998	hgsc.bcm.edu	37	19	9296991	9296991	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	3	149	0	0.0198676	0	.	.	none	OR7D2,NS,carcinoma,0,1	OR7D2	55	1	NM_175883	exon1	c.C534T	p.F178F	TTTTTTCTGCGAA	.	scavenged	Atlas-SNP
MAGEA4	4103	hgsc.bcm.edu	37	X	151092653	151092653	+	Missense_Mutation	SNP	G	G	A	rs1047251	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	229	385	1	0.995652	0.0025974	0|0.004;A|0.556	0.556	strong	.	MAGEA4	68	.	NM_001011548	exon3	c.G517A	p.A173T	GACCCCGCCAGCA	.	PASS	Atlas-SNP
HIVEP1	3096	hgsc.bcm.edu	37	6	12120588	12120588	+	Missense_Mutation	SNP	C	C	T	rs2228209	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	192	137	0	0.994819	0	C|0.744;N|0.001	.	strong	.	HIVEP1	242	.	NM_002114	exon4	c.C560T	p.T187M	GCACTACGTCCCC	.	PASS	Atlas-SNP
KIAA0556	23247	hgsc.bcm.edu	37	16	27781309	27781309	+	Missense_Mutation	SNP	G	G	A	rs11644502	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	36	77	0	0.404494	0	G|0.956;A|0.044	0.044	strong	.	KIAA0556	348	.	NM_015202	exon21	c.G4103A	p.R1368Q	ACCTACGGGCTCA	.	PASS	Atlas-SNP
DYRK2	8445	hgsc.bcm.edu	37	12	68043643	68043643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	34	65	0	0.653846	0	.	.	none	.	DYRK2	63	.	NM_006482	exon2	c.G116A	p.R39Q	CCACCCGGAGCGG	.	PASS	Atlas-SNP
SLC6A15	55117	hgsc.bcm.edu	37	12	85277608	85277608	+	Silent	SNP	C	C	T	rs17183612	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	70	134	0	0.463576	0	C|0.801;T|0.199	0.199	strong	.	SLC6A15	159	.	NM_018057	exon5	c.G786A	p.L262L	GATTAGCAGAATG	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103396716	103396716	+	Missense_Mutation	SNP	C	C	G	rs6491708	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	32	56	0	0.484848	0	C|0.327;G|0.673	0.673	strong	.	.	.	.	NM_001146197	exon4	c.G6331C	p.E2111Q	TTTTCTCAGAAAT	.	PASS	Atlas-SNP
F13B	2165	hgsc.bcm.edu	37	1	197009798	197009798	+	Silent	SNP	A	A	G	rs5998	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	305	149	282	0	0.488525	0	A|0.547;G|0.453	0.453	strong	.	F13B	137	.	NM_001994	exon11	c.T1806C	p.N602N	TGGTCTATTGTCA	.	PASS	Atlas-SNP
SHQ1	55164	hgsc.bcm.edu	37	3	72891547	72891547	+	Missense_Mutation	SNP	A	A	C	rs78491606	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	37	59	0	0.440476	0	A|0.989;C|0.011	0.011	strong	.	SHQ1	60	.	NM_018130	exon3	c.T215G	p.F72C	ATGGTAAAAATTC	.	PASS	Atlas-SNP
GEMIN4	50628	hgsc.bcm.edu	37	17	650510	650510	+	Missense_Mutation	SNP	T	T	C	rs61753060	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	68	181	0	0.414634	0	T|0.981;C|0.019	0.019	strong	.	GEMIN4	116	.	NM_015721	exon2	c.A773G	p.Q258R	ACCTCCTGGGGGT	.	PASS	Atlas-SNP
TMCO3	55002	hgsc.bcm.edu	37	13	114150107	114150107	+	Silent	SNP	C	C	T	rs11164135	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	19	52	0	0.404255	0	C|0.913;T|0.087	0.087	strong	.	TMCO3	77	.	NM_017905	exon2	c.C211T	p.L71L	AACAAACTGAAAA	.	PASS	Atlas-SNP
SPATC1L	84221	hgsc.bcm.edu	37	21	47581869	47581869	+	Silent	SNP	G	G	A	rs139199473	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	16	62	0	0.533333	0	G|1.000;A|0.000	0.000	strong	.	.	.	.	NM_001142854	exon4	c.C657T	p.Y219Y	GAAGCCGTAGAGC	.	PASS	Atlas-SNP
SLC25A26	115286	hgsc.bcm.edu	37	3	66419942	66419942	+	Silent	SNP	A	A	G	rs1129179	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	45	85	0	0.483871	0	A|0.869;G|0.131;T|0.000	0.131	strong	.	SLC25A26	12	.	NM_173471	exon9	c.A609G	p.A203A	CGTGGCAAAGACA	.	PASS	Atlas-SNP
OVCH2	341277	hgsc.bcm.edu	37	11	7712561	7712561	+	Missense_Mutation	SNP	T	T	A	rs4519083	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	55	100	0	0.491071	0	T|0.823;A|0.177	0.177	strong	.	OVCH2	47	.	NM_198185	exon15	c.A1578T	p.Q526H	ATCTGATTGGAAG	.	PASS	Atlas-SNP
DHTKD1	55526	hgsc.bcm.edu	37	10	12162789	12162789	+	Missense_Mutation	SNP	C	C	A	rs143212640	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	63	127	0	0.473684	0	C|0.998;A|0.002	0.002	strong	.	DHTKD1	104	.	NM_018706	exon17	c.C2662A	p.R888S	TAGCTCCGTCTGG	.	PASS	Atlas-SNP
CCDC33	80125	hgsc.bcm.edu	37	15	74560776	74560776	+	Missense_Mutation	SNP	G	G	T	rs56107695	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	52	72	0	0.547368	0	G|0.908;T|0.092	0.092	strong	.	CCDC33	160	.	NM_025055	exon5	c.G523T	p.G175C	TACATCGGCTGCA	.	PASS	Atlas-SNP
EXOC2	55770	hgsc.bcm.edu	37	6	564145	564145	+	Silent	SNP	A	A	G	rs2277095	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	58	92	0	0.504348	0	A|0.907;G|0.093	0.093	strong	.	EXOC2	81	.	NM_018303	exon16	c.T1677C	p.H559H	CGATTCATGAGTA	.	PASS	Atlas-SNP
LAMC3	10319	hgsc.bcm.edu	37	9	133911706	133911706	+	Silent	SNP	C	C	T	rs2275131	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	45	105	0	0.483871	0	C|0.579;T|0.421	0.421	strong	LAMC3,NS,carcinoma,0,1	LAMC3	167	1	NM_006059	exon4	c.C963T	p.A321A	GGCTGCCCACGAG	.	PASS	Atlas-SNP
KCNK10	54207	hgsc.bcm.edu	37	14	88652389	88652389	+	Silent	SNP	C	C	T	rs3742692	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	66	86	0	1	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
TRMT13	54482	hgsc.bcm.edu	37	1	100598866	100598866	+	Missense_Mutation	SNP	G	G	A	rs472498	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	58	73	0	1	0	G|0.313;A|0.687	0.687	strong	.	.	.	.	NM_019083	exon1	c.G142A	p.A48T	GGAGCCGCGGAGG	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41234470	41234470	+	Silent	SNP	A	A	G	rs1060915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	94	143	0	0.573171	0	A|0.713;G|0.287	0.287	strong	.	BRCA1	304	.	NM_007300	exon12	c.T4308C	p.S1436S	GGCAGAAGAGTCA	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238247734	238247734	+	Missense_Mutation	SNP	C	C	G	rs36104025	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	30	47	0	0.5	0	C|0.942;G|0.058	0.058	strong	.	COL6A3	608	.	NM_004369	exon39	c.G8491C	p.D2831H	TGATATCTGGGGA	.	PASS	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	37	5	167553880	167553880	+	Silent	SNP	C	C	T	rs10055910	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	128	180	0	0.670157	0	C|0.828;T|0.172	0.172	strong	.	.	.	.	NM_001122679	exon12	c.C2331T	p.H777H	TGAGCACGGGACC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	66	135	0	0.481752	0	T|0.960;C|0.040	0.040	strong	.	BRCA1	304	.	NM_007300	exon10	c.A1067G	p.Q356R	AGTTTCTGCTTAT	.	PASS	Atlas-SNP
ANKRD12	23253	hgsc.bcm.edu	37	18	9254785	9254785	+	Missense_Mutation	SNP	C	C	T	rs17498752	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	75	158	0	0.6	0	C|0.938;T|0.062	0.062	strong	.	ANKRD12	167	.	NM_015208	exon9	c.C1520T	p.T507I	TAAATACTGGACT	.	PASS	Atlas-SNP
CARM1	10498	hgsc.bcm.edu	37	19	11031118	11031118	+	Silent	SNP	C	C	T	rs370080653		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	3	108	0	0.0288462	0	.	.	weak	CARM1,NS,carcinoma,0,1	CARM1	47	1	NM_199141	exon11	c.C1203T	p.T401T	AATGACCGTGTGG	.	scavenged	Atlas-SNP
IGHMBP2	3508	hgsc.bcm.edu	37	11	68705674	68705674	+	Missense_Mutation	SNP	C	C	A	rs17612126	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	59	108	0	0.526786	0	C|0.791;A|0.209	0.209	strong	.	IGHMBP2	83	.	NM_002180	exon14	c.C2636A	p.T879K	TGCCCACGGAGGA	.	PASS	Atlas-SNP
GFM2	84340	hgsc.bcm.edu	37	5	74046464	74046464	+	Silent	SNP	C	C	T	rs17852781	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	350	156	321	0	0.445714	0	C|0.854;T|0.146	0.146	strong	.	GFM2	38	.	NM_032380	exon7	c.G459A	p.E153E	GCACCGCTCAACC	.	PASS	Atlas-SNP
C1orf131	128061	hgsc.bcm.edu	37	1	231376806	231376806	+	Missense_Mutation	SNP	G	G	C	rs2274067	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	52	145	0	0.422764	0	G|0.919;C|0.081	0.081	strong	.	C1orf131	30	.	NM_152379	exon1	c.C82G	p.L28V	CAAGAAGTGTCGG	.	PASS	Atlas-SNP
ZNF45	7596	hgsc.bcm.edu	37	19	44418343	44418343	+	Silent	SNP	C	C	T	rs406968	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	106	185	0	0.493023	0	C|0.504;T|0.496	0.496	strong	ZNF45,caecum,carcinoma,0,1	ZNF45	51	1	NM_003425	exon10	c.G1245A	p.P415P	CTGATACGGTTTC	.	PASS	Atlas-SNP
EP300	2033	hgsc.bcm.edu	37	22	41551039	41551039	+	Silent	SNP	T	T	A	rs20552	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	58	89	0	0.460317	0	T|0.375;A|0.625	0.625	strong	.	EP300	367	.	NM_001429	exon17	c.T3183A	p.T1061T	GCCAACTTTGGAG	.	PASS	Atlas-SNP
ZCCHC7	84186	hgsc.bcm.edu	37	9	37304232	37304232	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	25	128	0	0.233645	0	.	.	none	.	ZCCHC7	56	.	NM_032226	exon4	c.C702T	p.Y234Y	GCGGTACTATTCA	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52888049	52888049	+	Missense_Mutation	SNP	C	C	A	rs75346003	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	14	38	0	0.325581	0	C|0.872;A|0.128	0.128	strong	ZNF880,colon,carcinoma,-1,2	ZNF880	45	2	NM_001145434	exon4	c.C1216A	p.Q406K	GGAGAGCAACCTT	.	PASS	Atlas-SNP
ANP32D	23519	hgsc.bcm.edu	37	12	48866792	48866792	+	Silent	SNP	C	C	T	rs7966826	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	113	244	0	0.44664	0	C|0.833;T|0.167	0.167	strong	ANP32D,NS,carcinoma,0,1	ANP32D	15	1	NM_012404	exon1	c.C345T	p.L115L	AAACCTCGAGAGC	.	PASS	Atlas-SNP
NACA2	342538	hgsc.bcm.edu	37	17	59668021	59668021	+	Missense_Mutation	SNP	G	G	C	rs61739273	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	263	119	245	1	0.452471	0.00408163	G|0.868;C|0.132	0.132	strong	NACA2,NS,carcinoma,0,2	NACA2	33	2	NM_199290	exon1	c.C521G	p.T174R	ACACCTGTTTCAT	.	PASS	Atlas-SNP
MCEE	84693	hgsc.bcm.edu	37	2	71351487	71351487	+	Missense_Mutation	SNP	G	G	A	rs11541017	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	64	133	1	0.496124	0.0075188	G|0.753;A|0.247	0.247	strong	MCEE,colon,carcinoma,0,2	MCEE	19	2	NM_032601	exon2	c.C227T	p.A76V	GGGACCGCTTCAC	.	scavenged	Atlas-SNP
PIAS4	51588	hgsc.bcm.edu	37	19	4028783	4028783	+	Silent	SNP	C	C	T	rs2289863	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	47	111	0	0.385246	0	C|0.412;T|0.588	0.588	strong	PIAS4,colon,carcinoma,0,1	PIAS4	40	1	NM_015897	exon6	c.C738T	p.T246T	CCTCACCCACCTC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	43	82	0	0.544304	0	G|0.875;A|0.125	0.125	strong	.	C6orf195	10	.	NM_152554	exon3	c.C127T	p.P43S	GAGCGGGCCTGGC	.	PASS	Atlas-SNP
C12orf4	57102	hgsc.bcm.edu	37	12	4627414	4627414	+	Silent	SNP	C	C	T	rs35924298	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	31	55	0	0.418919	0	C|0.922;T|0.078	0.078	strong	.	C12orf4	58	.	NM_020374	exon8	c.G843A	p.Q281Q	CTTCAACTGGGCT	.	PASS	Atlas-SNP
KCTD3	51133	hgsc.bcm.edu	37	1	215793834	215793834	+	Silent	SNP	G	G	A	rs14137	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	61	55	0	1	0	G|0.503;A|0.497	0.497	strong	.	KCTD3	101	.	NM_016121	exon18	c.G2322A	p.A774A	TCTGGCGTCATCA	.	PASS	Atlas-SNP
RARS	5917	hgsc.bcm.edu	37	5	167933158	167933158	+	Missense_Mutation	SNP	T	T	A	rs2305734	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	94	101	0	0.989474	0	T|0.869;A|0.131	0.131	strong	.	RARS	58	.	NM_002887	exon10	c.T1190A	p.F397Y	GACTATTTGAGGA	.	PASS	Atlas-SNP
GSDMC	56169	hgsc.bcm.edu	37	8	130760774	130760774	+	Silent	SNP	C	C	T	rs4733559	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	76	123	0	0.5	0	C|0.868;T|0.132	0.132	strong	.	GSDMC	71	.	NM_031415	exon14	c.G1500A	p.S500S	CAGCAACGAGAGA	.	PASS	Atlas-SNP
ANKRD12	23253	hgsc.bcm.edu	37	18	9258531	9258531	+	Silent	SNP	C	C	T	rs3744823	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	21	73	0	0.525	0	C|0.924;T|0.076	0.076	strong	.	ANKRD12	167	.	NM_015208	exon9	c.C5266T	p.L1756L	TGTACACTATTAT	.	PASS	Atlas-SNP
HOXA1	3198	hgsc.bcm.edu	37	7	27135314	27135314	+	Missense_Mutation	SNP	C	C	T	rs10951154	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	30	54	0	0.428571	0	C|0.261;T|0.739	0.739	strong	.	HOXA1	64	.	NM_153620	exon1	c.G218A	p.R73H	GGGTGGCGATGGT	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56202418	56202418	+	Silent	SNP	T	T	C	rs10469212	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	72	69	0	1	0	T|0.071;C|0.929	0.929	strong	.	ALPK2	487	.	NM_052947	exon5	c.A5001G	p.K1667K	CAGTAATTTAGGG	.	PASS	Atlas-SNP
DES	1674	hgsc.bcm.edu	37	2	220285309	220285309	+	Silent	SNP	C	C	T	rs1058261	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	137	118	0	0.992754	0	C|0.634;T|0.366	0.366	strong	.	DES	53	.	NM_001927	exon4	c.C828T	p.D276D	CAGGGACATCCGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	97	292	0	0.327703	0	A|0.858;G|0.142	0.142	strong	.	FAM71B	145	.	NM_130899	exon2	c.T1691C	p.M564T	TCCACCATCTTAG	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7735934	7735934	+	Missense_Mutation	SNP	G	G	A	rs61745181	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	41	86	0	0.366071	0	G|0.935;A|0.065	0.065	strong	.	DNAH2	498	.	NM_020877	exon82	c.G12764A	p.R4255Q	GGACCCGGGACTT	.	PASS	Atlas-SNP
OR4D6	219983	hgsc.bcm.edu	37	11	59224608	59224608	+	Missense_Mutation	SNP	A	A	G	rs1453544	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	270	139	284	0	0.514815	0	A|0.815;G|0.185	0.185	strong	OR4D6,NS,adenoma,0,1	OR4D6	65	1	NM_001004708	exon1	c.A175G	p.M59V	ACTCCTATGTACT	.	PASS	Atlas-SNP
OR5B12	390191	hgsc.bcm.edu	37	11	58207494	58207494	+	Missense_Mutation	SNP	A	A	G	rs140525146	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	60	108	0	0.550459	0	A|0.995;G|0.005	0.005	strong	.	OR5B12	80	.	NM_001004733	exon1	c.T131C	p.I44T	AATTCAATCATCC	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240805	39240805	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	9	102	1	0.0825688	0.00980392	.	.	none	KRTAP4-7,caecum,carcinoma,+1,1	KRTAP4-7	49	1	NM_033061	exon1	c.G347T	p.R116L	GCTGCCGCCCCTG	.	scavenged	Atlas-SNP
FTHL17	53940	hgsc.bcm.edu	37	X	31089930	31089930	+	Silent	SNP	C	C	T	rs438870	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	75	206	1	0.974026	0.00485437	C|0.735;0|0.004	.	strong	.	FTHL17	99	.	NM_031894	exon1	c.G141A	p.V47V	CAGGGCCACGTCG	.	PASS	Atlas-SNP
ATP2B2	491	hgsc.bcm.edu	37	3	10443827	10443827	+	Silent	SNP	G	G	C	rs13084776	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	45	89	0	0.412844	0	G|0.823;C|0.177	0.177	strong	.	ATP2B2	304	.	NM_001683	exon4	c.C603G	p.V201V	GATCTGGACCACC	.	PASS	Atlas-SNP
SRRM4	84530	hgsc.bcm.edu	37	12	119588962	119588962	+	Missense_Mutation	SNP	G	G	A	rs2723880	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	91	85	0	1	0	G|0.714;A|0.286	0.286	strong	.	SRRM4	131	.	NM_194286	exon10	c.G1217A	p.R406Q	CGTCCCGATCCCC	.	PASS	Atlas-SNP
LIPC	3990	hgsc.bcm.edu	37	15	58834741	58834741	+	Silent	SNP	G	G	T	rs690	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	101	86	0	1	0	G|0.489;T|0.511	0.511	strong	.	LIPC	56	.	NM_000236	exon4	c.G465T	p.V155V	ATCTGTGCAACTC	.	PASS	Atlas-SNP
TNK1	8711	hgsc.bcm.edu	37	17	7286266	7286266	+	Silent	SNP	C	C	T	rs1554947	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	109	112	0	0.981982	0	C|0.631;T|0.369	0.369	strong	.	TNK1	31	.	NM_003985	exon2	c.C21T	p.S7S	TGGCTCCCTGTGG	.	PASS	Atlas-SNP
JMJD4	65094	hgsc.bcm.edu	37	1	227920186	227920186	+	Silent	SNP	G	G	A	rs35575794	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	102	207	0	0.515152	0	G|0.956;A|0.044	0.044	strong	.	JMJD4	28	.	NM_023007	exon6	c.C1299T	p.D433D	CTGGAAGTCGGGG	.	PASS	Atlas-SNP
ANKRD36B	57730	hgsc.bcm.edu	37	2	98164184	98164184	+	Missense_Mutation	SNP	C	C	G	rs13001728	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	264	259	0	1	0	C|0.590;G|0.410	0.410	strong	.	.	.	.	NM_025190	exon21	c.G1488C	p.E496D	TGGTTGCTCAAAA	.	PASS	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	37	3	129297255	129297255	+	Missense_Mutation	SNP	T	T	C	rs112755880	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	64	125	0	0.481203	0	T|0.997;C|0.003	0.003	strong	.	PLXND1	149	.	NM_015103	exon9	c.A2263G	p.T755A	GCAGGGTCCGGGG	.	PASS	Atlas-SNP
C6orf89	221477	hgsc.bcm.edu	37	6	36882353	36882353	+	Silent	SNP	A	A	G	rs2272275	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	94	147	0	0.569697	0	A|0.727;G|0.273	0.273	strong	.	C6orf89	39	.	NM_152734	exon5	c.A600G	p.E200E	GGAGGAAGAGATT	.	PASS	Atlas-SNP
SLFNL1	200172	hgsc.bcm.edu	37	1	41485902	41485902	+	Missense_Mutation	SNP	C	C	G	rs3738368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	60	79	0	0.983607	0	C|0.777;G|0.222	0.222	strong	.	SLFNL1	37	.	NM_001168247	exon3	c.G431C	p.R144T	ACCTCTCTGTGGC	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19175846	19175846	+	Missense_Mutation	SNP	T	T	C	rs28374389	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	18	80	0	0.28125	0	T|0.832;C|0.168	0.168	strong	.	TAS1R2	134	.	NM_152232	exon4	c.A1456G	p.I486V	TGTTGATGGTGTG	.	PASS	Atlas-SNP
STK40	83931	hgsc.bcm.edu	37	1	36807481	36807481	+	Missense_Mutation	SNP	C	C	T	rs3795498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	54	213	0	0.382979	0	C|0.795;T|0.205	0.205	strong	SgK495,NS,lymphoid_neoplasm,0,2	STK40	53	2	NM_032017	exon12	c.G1183A	p.A395T	TCCGGGCGTCATG	.	PASS	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	37	5	32090294	32090294	+	Missense_Mutation	SNP	G	G	A	rs10066063	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	77	148	0	0.461078	0	G|0.898;A|0.102	0.102	strong	.	PDZD2	306	.	NM_178140	exon19	c.G6740A	p.R2247Q	GCTCTCGGGACAG	.	PASS	Atlas-SNP
SLC37A3	84255	hgsc.bcm.edu	37	7	140051091	140051091	+	Silent	SNP	G	G	A	rs12703775	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	61	124	0	0.406667	0	G|0.579;A|0.421	0.421	strong	SLC37A3,NS,carcinoma,0,1	SLC37A3	80	1	NM_207113	exon9	c.C864T	p.C288C	AGGAAGGCAACAT	.	PASS	Atlas-SNP
HEATR1	55127	hgsc.bcm.edu	37	1	236749649	236749649	+	Missense_Mutation	SNP	T	T	C	rs2794763	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	335	334	326	0	0.997015	0	T|0.565;C|0.435	0.435	strong	.	HEATR1	197	.	NM_018072	exon15	c.A1819G	p.M607V	TAACCATAAATGG	.	PASS	Atlas-SNP
EPHX1	2052	hgsc.bcm.edu	37	1	226019633	226019633	+	Missense_Mutation	SNP	T	T	C	rs1051740	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	44	52	0	0.517647	0	C|0.290;N|0.000	0.290	strong	.	EPHX1	57	.	NM_001136018	exon3	c.T337C	p.Y113H	AACAGATACCCTC	.	PASS	Atlas-SNP
NEK10	152110	hgsc.bcm.edu	37	3	27326097	27326097	+	Silent	SNP	G	G	T	rs11129280	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	33	85	0	0.5	0	G|0.774;T|0.226	0.226	strong	.	NEK10	271	.	NM_199347	exon23	c.C2010A	p.T670T	ACTAACGGTTACT	.	PASS	Atlas-SNP
ENTPD4	9583	hgsc.bcm.edu	37	8	23290451	23290451	+	Silent	SNP	C	C	T	rs17089244	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	19	10	42	0	0.526316	0	C|0.877;T|0.123	0.123	strong	.	ENTPD4	56	.	NM_004901	exon13	c.G1839A	p.P613P	GGTCCCCGGGGCA	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31323116	31323116	+	Silent	SNP	C	C	T	rs1131446	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	31	205	0	0.116541	0	C|0.943;T|0.057	0.057	strong	HLA-B,rectum,carcinoma,0,1	HLA-B	54	1	NM_005514	exon4	c.G873A	p.P291P	GGGCTTCGGCAGC	.	PASS	Atlas-SNP
SERPING1	710	hgsc.bcm.edu	37	11	57373646	57373646	+	Silent	SNP	C	C	T	rs143760635	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	124	219	1	0.518828	0.00456621	C|0.999;T|0.001	0.001	strong	SERPING1,NS,carcinoma,0,1	SERPING1	57	1	NM_001032295	exon4	c.C849T	p.S283S	GCCCTCCGATACC	.	PASS	Atlas-SNP
LHFPL5	222662	hgsc.bcm.edu	37	6	35773659	35773659	+	Missense_Mutation	SNP	A	A	G	rs148435294		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	399	6	340	0	0.0150376	0	A|1.000;G|0.000	0.000	weak	LHFPL5,NS,carcinoma,-1,1	LHFPL5	44	1	NM_182548	exon1	c.A212G	p.N71S	TGGGTAACGTGCT	.	scavenged	Atlas-SNP
PPFIA4	8497	hgsc.bcm.edu	37	1	203025583	203025583	+	Silent	SNP	G	G	A	rs61748818	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	52	93	0	0.4	0	G|0.944;A|0.056	0.056	strong	.	PPFIA4	139	.	NM_015053	exon5	c.G669A	p.T223T	CAGGACGCTGCGG	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536460	88536460	+	Silent	SNP	C	C	T	rs199691318	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	305	43	284	0	0.140984	0	.	.	weak	.	DSPP	174	.	NM_014208	exon5	c.C2646T	p.S882S	TGATAGCAGTGAC	.	PASS	Atlas-SNP
BBS1	582	hgsc.bcm.edu	37	11	66297363	66297363	+	Silent	SNP	C	C	T	rs3816492	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	28	41	0	0.571429	0	C|0.843;T|0.157	0.157	strong	.	BBS1	58	.	NM_024649	exon14	c.C1413T	p.L471L	GGCCCTCGAGTCC	.	PASS	Atlas-SNP
SLC1A4	6509	hgsc.bcm.edu	37	2	65245365	65245365	+	Missense_Mutation	SNP	G	G	A	rs759458	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	50	104	0	0.454545	0	G|0.791;N|0.001	.	strong	SLC1A4,NS,carcinoma,-2,1	SLC1A4	33	1	NM_003038	exon6	c.G1195A	p.V399I	AACAACGTAGAGC	.	PASS	Atlas-SNP
PFKP	5214	hgsc.bcm.edu	37	10	3172121	3172121	+	Silent	SNP	C	C	T	rs1052333	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	103	67	0	0.990385	0	C|0.611;T|0.389	0.389	strong	PFKP_ENST00000381075,NS,carcinoma,0,2	PFKP	182	2	NM_002627	exon17	c.C1794T	p.A598A	CGCGGCCGGAGCT	.	PASS	Atlas-SNP
MFF	56947	hgsc.bcm.edu	37	2	228194480	228194480	+	Missense_Mutation	SNP	A	A	T	rs3211097	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	64	201	0	0.42953	0	A|0.744;T|0.256	0.256	strong	.	MFF	48	.	NM_020194	exon3	c.A19T	p.S7C	ACAAGCAGTGACA	.	PASS	Atlas-SNP
CARD10	29775	hgsc.bcm.edu	37	22	37900771	37900771	+	Silent	SNP	A	A	G	rs3817806	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	28	71	0	0.363636	0	A|0.934;G|0.066	0.066	strong	.	CARD10	55	.	NM_014550	exon8	c.T1389C	p.C463C	GGAGGCACAGGCC	.	PASS	Atlas-SNP
RPS6KL1	83694	hgsc.bcm.edu	37	14	75386576	75386576	+	Missense_Mutation	SNP	G	G	A	rs2286913	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	71	111	0	0.486301	0	G|0.708;A|0.292	0.292	strong	RPS6KL1,colon,carcinoma,0,1	RPS6KL1	35	1	NM_031464	exon3	c.C362T	p.P121L	CTCAGCGGCCGCT	.	PASS	Atlas-SNP
CD93	22918	hgsc.bcm.edu	37	20	23065879	23065879	+	Silent	SNP	G	G	A	rs34170527	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	101	191	0	0.510101	0	G|0.958;A|0.042	0.042	strong	.	CD93	84	.	NM_012072	exon1	c.C951T	p.C317C	CAGGACGCACGTG	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29821523	29821523	+	Silent	SNP	T	T	C	rs1328323	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	101	158	0	0.545946	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
EIF5B	9669	hgsc.bcm.edu	37	2	99978048	99978048	+	Silent	SNP	G	G	A	rs12233086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	279	121	236	0	0.433692	0	G|0.842;A|0.158	0.158	strong	.	EIF5B	95	.	NM_015904	exon4	c.G684A	p.V228V	GACAGTGGCCCAA	.	PASS	Atlas-SNP
AIFM3	150209	hgsc.bcm.edu	37	22	21330787	21330787	+	Silent	SNP	C	C	T	rs7285694	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	37	57	0	0.521127	0	C|0.743;T|0.257	0.257	strong	.	AIFM3	49	.	NM_001146288	exon11	c.C1008T	p.A336A	GCTGGCCCGAGGC	.	PASS	Atlas-SNP
ZBED4	9889	hgsc.bcm.edu	37	22	50278568	50278568	+	Missense_Mutation	SNP	A	A	G	rs910799	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	44	54	0	1	0	A|0.371;G|0.629	0.629	strong	.	ZBED4	102	.	NM_014838	exon2	c.A1258G	p.I420V	GATGACATAGGGG	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25021154	25021154	+	Silent	SNP	C	C	T	rs61947037	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	99	242	1	0.942857	0.00413223	C|0.555;T|0.445	0.445	strong	.	PARP4	142	.	NM_006437	exon26	c.G3285A	p.Q1095Q	TCTTACCTGTGTG	.	PASS	Atlas-SNP
GPR111	222611	hgsc.bcm.edu	37	6	47649573	47649573	+	Silent	SNP	C	C	T	rs71538333	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	52	101	0	0.547368	0	CA|0.500;TG|0.500	.	alt	.	GPR111	123	.	NM_153839	exon7	c.C1074T	p.S358S	GCCAAGCAAATTG	.	PASS	Atlas-SNP
TAOK2	9344	hgsc.bcm.edu	37	16	29998200	29998200	+	Silent	SNP	A	A	G	rs4077410	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	79	147	1	0.523179	0.00680272	A|0.495;G|0.505	0.505	strong	TAOK2_ENST00000308893,NS,carcinoma,0,1	TAOK2	142	1	NM_016151	exon16	c.A2607G	p.T869T	TGGGACATGGAGC	.	scavenged	Atlas-SNP
TDP2	51567	hgsc.bcm.edu	37	6	24653283	24653283	+	Silent	SNP	T	T	C	rs11559067	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	61	80	0	0.508333	0	T|0.977;C|0.023	0.023	strong	.	TDP2	29	.	NM_016614	exon6	c.A735G	p.L245L	TTTCTTTAAAACC	.	PASS	Atlas-SNP
PODXL	5420	hgsc.bcm.edu	37	7	131195959	131195959	+	Missense_Mutation	SNP	C	C	T	rs3735035	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	127	289	0	0.444056	0	C|0.627;T|0.373	0.373	strong	.	PODXL	53	.	NM_001018111	exon2	c.G334A	p.G112S	CTGAGCCGCCTCC	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32168771	32168771	+	Silent	SNP	G	G	T	rs3134942	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	72	158	0	0.418605	0	G|0.909;T|0.091	0.091	strong	NOTCH4,colon,carcinoma,0,1	NOTCH4	201	1	NM_004557	exon23	c.C4152A	p.V1384V	ACCCATGACCACC	.	PASS	Atlas-SNP
SV2C	22987	hgsc.bcm.edu	37	5	75427935	75427935	+	Silent	SNP	G	G	A	rs10070440	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	116	107	0	1	0	G|0.480;A|0.520	0.520	strong	SV2C,NS,carcinoma,+2,2	SV2C	97	2	NM_014979	exon2	c.G360A	p.R120R	GGACCGGCGGGAG	.	PASS	Atlas-SNP
RNF215	200312	hgsc.bcm.edu	37	22	30782089	30782089	+	Silent	SNP	A	A	G	rs5997629	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	26	49	0	0.440678	0	A|0.674;G|0.326	0.326	strong	.	RNF215	19	.	NM_001017981	exon3	c.T471C	p.L157L	GATGAGAAGAAGC	.	PASS	Atlas-SNP
LMOD1	25802	hgsc.bcm.edu	37	1	201869257	201869257	+	Missense_Mutation	SNP	G	G	A	rs2820312	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	404	402	296	0	0.995049	0	G|0.763;A|0.237	0.237	strong	.	LMOD1	59	.	NM_012134	exon2	c.C884T	p.T295M	CTGGGCGTCTGTT	.	PASS	Atlas-SNP
NOP56	10528	hgsc.bcm.edu	37	20	2636059	2636059	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	19	141	0	0.145038	0	.	.	none	NOP56,NS,carcinoma,-2,1	NOP56	73	1	NM_006392	exon6	c.C658T	p.R220X	GGAAACCGAAGGG	.	PASS	Atlas-SNP
KLHL2	11275	hgsc.bcm.edu	37	4	166239083	166239083	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	19	155	0	0.123377	0	.	.	none	.	KLHL2	42	.	NM_001161521	exon14	c.T1727G	p.V576G	GGACAGTTGTGTC	.	PASS	Atlas-SNP
ISL2	64843	hgsc.bcm.edu	37	15	76630303	76630303	+	Silent	SNP	T	T	C	rs4636879	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	27	56	0	0.613636	0	T|0.354;C|0.646	0.646	strong	.	ISL2	20	.	NM_145805	exon2	c.T243C	p.Y81Y	GGACTATGTCAGG	.	PASS	Atlas-SNP
DRD2	1813	hgsc.bcm.edu	37	11	113283459	113283459	+	Silent	SNP	G	G	A	rs6277	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	386	183	343	0	0.474093	0	G|0.641;A|0.359	0.359	strong	.	DRD2	98	.	NM_000795	exon7	c.C957T	p.P319P	GCTGTCGGGAGTG	.	PASS	Atlas-SNP
RPS6KA2	6196	hgsc.bcm.edu	37	6	166862233	166862233	+	Silent	SNP	T	T	C	rs2230730	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	92	164	0	0.541176	0	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	.	PASS	Atlas-SNP
RNF169	254225	hgsc.bcm.edu	37	11	74546905	74546905	+	Silent	SNP	G	G	A	rs1125609	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	50	76	0	0.510204	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
LRRC15	131578	hgsc.bcm.edu	37	3	194081692	194081692	+	Silent	SNP	G	G	A	rs13090956	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	38	37	0	0.95	0	G|0.921;A|0.079	0.079	strong	.	LRRC15	137	.	NM_001135057	exon3	c.C99T	p.S33S	ACACTCGCTAGGG	.	PASS	Atlas-SNP
PRMT8	56341	hgsc.bcm.edu	37	12	3701464	3701464	+	Silent	SNP	G	G	A	rs34000611	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	36	63	0	0.5625	0	G|0.881;A|0.119	0.119	strong	PRMT8_ENST00000452611,NS,carcinoma,+1,2	PRMT8	97	2	NM_019854	exon9	c.G1047A	p.R349R	TGTCCGGAGGGGG	.	PASS	Atlas-SNP
ZNF286B	729288	hgsc.bcm.edu	37	17	18565350	18565350	+	Missense_Mutation	SNP	G	G	C	rs9912644	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	359	160	360	0	0.445682	0	G|0.648;C|0.352	0.352	strong	ZNF286B,NS,carcinoma,0,1	ZNF286B	75	1	NM_001145045	exon5	c.C1469G	p.T490S	TCTCCGGTATGAG	.	PASS	Atlas-SNP
NAPRT1	93100	hgsc.bcm.edu	37	8	144657801	144657801	+	Silent	SNP	G	G	A	rs9771743	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	236	127	214	0	0.538136	0	G|0.836;A|0.164	0.164	strong	.	NAPRT1	47	.	NM_145201	exon9	c.C1179T	p.G393G	ATAGACGCCACCC	.	PASS	Atlas-SNP
SOX30	11063	hgsc.bcm.edu	37	5	157078632	157078632	+	Missense_Mutation	SNP	G	G	A	rs13181859	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	89	100	0	0.695312	0	G|0.998;A|0.002	0.002	strong	.	SOX30	67	.	NM_178424	exon1	c.C455T	p.P152L	CCTCGAGGCCCCA	.	PASS	Atlas-SNP
MLC1	23209	hgsc.bcm.edu	37	22	50515273	50515273	+	Silent	SNP	G	G	A	rs6010165	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	44	71	0	0.656716	0	G|0.884;A|0.116	0.116	strong	.	MLC1	48	.	NM_015166	exon7	c.C594T	p.Y198Y	TACTGAGTAAGAT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	164	164	1	1	0.00609756	G|0.327;A|0.673	0.673	strong	.	LCT	309	.	NM_002299	exon11	c.C4606T	p.L1536L	CATTCAGCGTGAT	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	19901632	19901632	+	Silent	SNP	G	G	A	rs11025310	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	103	149	0	1	0	G|0.645;A|0.355	0.355	strong	NAV2,caecum,carcinoma,+1,1	NAV2	255	1	NM_145117	exon5	c.G729A	p.A243A	GCCAGCGCCACAT	.	PASS	Atlas-SNP
COL15A1	1306	hgsc.bcm.edu	37	9	101831995	101831995	+	Missense_Mutation	SNP	G	G	A	rs10519	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	142	148	0	1	0	G|0.860;A|0.140	0.140	strong	COL15A1,colon,carcinoma,0,1	COL15A1	211	1	NM_001855	exon42	c.G3994A	p.V1332I	CATGGCGTCCGCC	.	PASS	Atlas-SNP
LARS	51520	hgsc.bcm.edu	37	5	145519821	145519821	+	Silent	SNP	G	G	A	rs17493851	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	59	222	0	0.289216	0	G|0.799;A|0.201	0.201	strong	LARS,colon,carcinoma,0,2	LARS	100	2	NM_020117	exon21	c.C2094T	p.D698D	CCATTTGTCACTT	.	PASS	Atlas-SNP
PLCB3	5331	hgsc.bcm.edu	37	11	64026144	64026144	+	Silent	SNP	G	G	A	rs2244625	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	41	102	0	0.427083	0	G|0.521;A|0.479	0.479	strong	PLCB3,colon,carcinoma,+1,1	PLCB3	103	1	NM_000932	exon11	c.G1212A	p.S404S	GACCTCGCCCTAC	.	PASS	Atlas-SNP
TMIGD2	126259	hgsc.bcm.edu	37	19	4294623	4294623	+	Missense_Mutation	SNP	C	C	A	rs58237134	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	61	95	0	0.535088	0	C|0.806;A|0.194	0.194	strong	.	TMIGD2	38	.	NM_144615	exon4	c.G503T	p.W168L	GCACCCCACACGA	.	PASS	Atlas-SNP
PHIP	55023	hgsc.bcm.edu	37	6	79656570	79656570	+	Silent	SNP	G	G	A	rs2275290	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	35	81	0	0.555556	0	G|0.674;A|0.326	0.326	strong	.	PHIP	177	.	NM_017934	exon37	c.C4228T	p.L1410L	CAGACAGGCGCAA	.	PASS	Atlas-SNP
OR51A2	401667	hgsc.bcm.edu	37	11	4976671	4976671	+	Silent	SNP	G	G	A	rs2595984	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	347	7	651	0	0.0201729	0	G|0.880;A|0.120	0.120	strong	OR51A2,rectum,carcinoma,0,1	OR51A2	40	1	NM_001004748	exon1	c.C273T	p.A91A	TTCAGGGGCATTG	.	scavenged	Atlas-SNP
ZNF280A	129025	hgsc.bcm.edu	37	22	22869545	22869545	+	Missense_Mutation	SNP	T	T	G	rs361580	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	40	79	0	0.540541	0	T|0.451;G|0.549	0.549	strong	.	ZNF280A	67	.	NM_080740	exon2	c.A410C	p.Y137S	TCTGAGTAATTGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9069792	9069792	+	Missense_Mutation	SNP	G	G	A	rs1862458	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	83	163	0	0.50303	0	G|0.798;A|0.202	0.202	strong	.	MUC16	4315	.	NM_024690	exon3	c.C17654T	p.S5885F	TCCCAGGAAGCTG	.	PASS	Atlas-SNP
FAM47A	158724	hgsc.bcm.edu	37	X	34148877	34148877	+	Missense_Mutation	SNP	C	C	G	rs5973088	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	13	151	0	0.206349	0	C|0.996;G|0.004	0.004	strong	.	FAM47A	249	.	NM_203408	exon1	c.G1519C	p.E507Q	GAGGCTCCGAGCG	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910731	29910731	+	Missense_Mutation	SNP	G	G	A	rs79361534	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	100	200	0	0.377358	0	A|0.124;G|0.876	0.124	strong	.	HLA-A	89	.	NM_001242758	exon2	c.G271A	p.V91M	CGGAATGTGAAGG	.	PASS	Atlas-SNP
GSDMA	284110	hgsc.bcm.edu	37	17	38131187	38131187	+	Missense_Mutation	SNP	C	C	A	rs56030650	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	112	99	0	1	0	C|0.572;A|0.428	0.428	strong	.	GSDMA	26	.	NM_178171	exon10	c.C941A	p.T314N	AAGTGACCCTGGA	.	PASS	Atlas-SNP
IQCA1	79781	hgsc.bcm.edu	37	2	237374309	237374309	+	Silent	SNP	C	C	T	rs35432941	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	81	164	0	0.465517	0	C|0.896;T|0.104	0.104	strong	.	IQCA1	170	.	NM_001270585	exon6	c.G786A	p.Q262Q	TTCAGCCTGGATT	.	PASS	Atlas-SNP
HOXC9	3225	hgsc.bcm.edu	37	12	54394497	54394497	+	Silent	SNP	C	C	T	rs2241820	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	14	6	8	0	0.428571	0	C|0.388;T|0.612	0.612	strong	.	HOXC9	25	.	NM_006897	exon1	c.C525T	p.A175A	GAAGGCCGACCTG	.	PASS	Atlas-SNP
PCSK1	5122	hgsc.bcm.edu	37	5	95728974	95728974	+	Missense_Mutation	SNP	G	G	C	rs6234	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	307	156	294	0	0.508143	0	G|0.744;C|0.254	0.254	strong	.	PCSK1	93	.	NM_000439	exon14	c.C1993G	p.Q665E	TGGCCTGGGAAGG	.	PASS	Atlas-SNP
IL10RA	3587	hgsc.bcm.edu	37	11	117864063	117864063	+	Missense_Mutation	SNP	A	A	G	rs3135932	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	48	115	0	0.457143	0	A|0.893;G|0.107	0.107	strong	.	IL10RA	46	.	NM_001558	exon4	c.A475G	p.S159G	TATGAAAGCATCT	.	PASS	Atlas-SNP
SLC4A1AP	22950	hgsc.bcm.edu	37	2	27887034	27887034	+	Missense_Mutation	SNP	C	C	A	rs9678851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	75	104	0	0.531915	0	C|0.590;A|0.410	0.410	strong	.	SLC4A1AP	63	.	NM_018158	exon1	c.C415A	p.P139T	CGCCCCCCGACAG	.	PASS	Atlas-SNP
IFNGR1	3459	hgsc.bcm.edu	37	6	137519588	137519588	+	Silent	SNP	A	A	C	rs11914	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	51	121	0	0.51	0	A|0.874;C|0.126	0.126	strong	.	IFNGR1	46	.	NM_000416	exon7	c.T1050G	p.S350S	TATACTAGAAAGT	.	PASS	Atlas-SNP
NUP107	57122	hgsc.bcm.edu	37	12	69082805	69082805	+	Silent	SNP	G	G	A	rs2259588	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	73	97	0	0.532847	0	G|0.777;A|0.223	0.223	strong	NUP107,NS,carcinoma,+2,1	NUP107	88	1	NM_020401	exon2	c.G72A	p.R24R	TGCACGGAAACAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506775	195506775	+	Silent	SNP	G	G	A	rs79609066	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	52	8	0	0.732394	0	G|0.767;A|0.233	0.233	strong	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C11676T	p.T3892T	AGTGTCGGTGACA	.	PASS	Atlas-SNP
CYP4F3	4051	hgsc.bcm.edu	37	19	15760053	15760053	+	Silent	SNP	G	G	A	rs1053037	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	105	200	0	0.504808	0	G|0.880;A|0.120	0.120	strong	.	CYP4F3	69	.	NM_001199209	exon6	c.G609A	p.L203L	CAGTCTGCAGAAA	.	PASS	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	37	1	47610065	47610065	+	Missense_Mutation	SNP	A	A	C	rs6661132	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	75	291	0	0.347222	0	A|1.000;|0.000	.	weak	.	CYP4A22	60	.	NM_001010969	exon7	c.A827C	p.K276T	TACAGAAGGAGGG	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33638180	33638180	+	Silent	SNP	C	C	T	rs2229634	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	91	127	0	0.561728	0	C|0.719;T|0.281	0.281	strong	.	ITPR3	409	.	NM_002224	exon19	c.C2268T	p.G756G	GCTGGGCGTGGAC	.	PASS	Atlas-SNP
HS6ST1	9394	hgsc.bcm.edu	37	2	129026358	129026358	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	30	239	0	0.113208	0	.	.	none	.	HS6ST1	31	.	NM_004807	exon2	c.A614G	p.K205R	GACGTCTTCCACG	.	PASS	Atlas-SNP
ADAM15	8751	hgsc.bcm.edu	37	1	155023917	155023917	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	11	25	0	0.52381	0	.	.	none	.	ADAM15	92	.	NM_003815	exon1	c.C55T	p.P19S	CCTCTGCCTTCCT	.	PASS	Atlas-SNP
RASGRP3	25780	hgsc.bcm.edu	37	2	33759395	33759395	+	Silent	SNP	C	C	T	rs35933402	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	45	101	0	0.416667	0	C|0.890;T|0.110	0.110	strong	.	RASGRP3	87	.	NM_170672	exon12	c.C1089T	p.S363S	GCTTTCCCTGGAC	.	PASS	Atlas-SNP
KIAA0391	9692	hgsc.bcm.edu	37	14	35592538	35592538	+	Silent	SNP	C	C	G	rs941653	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	26	40	0	0.577778	0	C|0.792;G|0.208	0.208	strong	.	KIAA0391	35	.	NM_014672	exon2	c.C87G	p.V29V	TTATGTCTCGCTG	.	PASS	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	37	16	16278863	16278863	+	Missense_Mutation	SNP	G	G	T	rs8058694	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	113	175	0	0.528037	0	G|0.607;T|0.393	0.393	strong	.	ABCC6	110	.	NM_001171	exon15	c.C1896A	p.H632Q	GGCACTGTGTATG	.	PASS	Atlas-SNP
TUBAL3	79861	hgsc.bcm.edu	37	10	5436073	5436073	+	Missense_Mutation	SNP	G	G	A	rs34080891	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	96	172	0	0.502618	0	G|0.962;A|0.038	0.038	strong	.	TUBAL3	54	.	NM_024803	exon4	c.C748T	p.R250W	CAAACCGGAGGGA	.	PASS	Atlas-SNP
MAMDC2	256691	hgsc.bcm.edu	37	9	72741298	72741298	+	Silent	SNP	G	G	A	rs2296773	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	26	82	0	0.325	0	G|0.928;A|0.072	0.072	strong	MAMDC2,colon,carcinoma,+1,1	MAMDC2	55	1	NM_153267	exon6	c.G867A	p.A289A	CCTTGCGGAGGTC	.	PASS	Atlas-SNP
FAM181A	90050	hgsc.bcm.edu	37	14	94394715	94394715	+	Silent	SNP	C	C	T	rs11554726	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	27	67	0	0.509434	0	C|0.889;T|0.111	0.111	strong	.	FAM181A	42	.	NM_138344	exon3	c.C270T	p.S90S	TAAGTCCGCACCC	.	PASS	Atlas-SNP
CHGB	1114	hgsc.bcm.edu	37	20	5903848	5903848	+	Missense_Mutation	SNP	C	C	G	rs236152	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	26	54	0	0.481481	0	C|0.545;G|0.455	0.455	strong	.	CHGB	112	.	NM_001819	exon4	c.C1058G	p.A353G	TCCAGGCCCCTGA	.	PASS	Atlas-SNP
KCNF1	3754	hgsc.bcm.edu	37	2	11053740	11053740	+	Silent	SNP	C	C	T	rs3732105	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	104	101	0	1	0	C|0.471;T|0.529	0.529	strong	.	KCNF1	70	.	NM_002236	exon1	c.C1188T	p.I396I	TGTCATCGCCATC	.	PASS	Atlas-SNP
ZNF524	147807	hgsc.bcm.edu	37	19	56114237	56114237	+	Silent	SNP	G	G	A	rs310459	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	50	51	0	1	0	G|0.147;A|0.853	0.853	strong	.	ZNF524	18	.	NM_153219	exon2	c.G759A	p.E253E	CGAGGAGGAGGAG	.	PASS	Atlas-SNP
C10orf54	64115	hgsc.bcm.edu	37	10	73521371	73521371	+	Silent	SNP	C	C	T	rs3747867	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	24	58	0	0.413793	0	C|0.779;T|0.221	0.221	strong	.	C10orf54	29	.	NM_022153	exon2	c.G495A	p.E165E	CTGCAGCTCCATG	.	PASS	Atlas-SNP
KREMEN1	83999	hgsc.bcm.edu	37	22	29533572	29533572	+	Missense_Mutation	SNP	C	C	G	rs34920087	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	51	78	0	0.62963	0	C|0.862;G|0.138	0.138	strong	.	KREMEN1	46	.	NM_001039570	exon6	c.C874G	p.L292V	CCACCTCTGTCCT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507836	195507836	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	692	37	273	0	0.0534682	0	.	.	none	MUC4_ENST00000463781,trunk,malignant_melanoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G10615C	p.V3539L	TGGTGACAGGAAG	.	PASS	Atlas-SNP
SNAPC3	6619	hgsc.bcm.edu	37	9	15459821	15459821	+	Missense_Mutation	SNP	A	A	C	rs3087653	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	44	145	0	0.318841	0	A|0.956;C|0.044	0.044	strong	.	SNAPC3	28	.	NM_001039697	exon9	c.A1193C	p.E398A	TGGGGGAATTCCT	.	PASS	Atlas-SNP
BEND7	222389	hgsc.bcm.edu	37	10	13494594	13494594	+	Silent	SNP	T	T	C	rs2277222	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	301	138	264	0	0.458472	0	T|0.677;C|0.323	0.323	strong	.	BEND7	85	.	NM_001100912	exon6	c.A1011G	p.V337V	AATCTGTACCCAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9075584	9075584	+	Silent	SNP	T	T	A	rs2547069	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	416	195	390	0	0.46875	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
MST1L	11223	hgsc.bcm.edu	37	1	17087343	17087343	+	Missense_Mutation	SNP	G	G	C	rs186420363		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	560	92	517	0	0.164286	0	.	.	weak	Q13209_HUMAN,NS,carcinoma,0,2	.	.	2	NM_001271733	exon3	c.C241G	p.H81D	AACCATGGCTGCT	.	PASS	Atlas-SNP
LATS1	9113	hgsc.bcm.edu	37	6	149983216	149983216	+	Silent	SNP	G	G	A	rs3924871	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	71	155	0	0.5	0	G|0.512;A|0.488	0.488	strong	.	LATS1	241	.	NM_004690	exon8	c.C3042T	p.D1014D	GGAGAAGTCAATT	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	89989779	89989779	+	Silent	SNP	G	G	A	rs16876822	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	169	119	0	1	0	G|0.672;A|0.328	0.328	strong	.	GPR98	605	.	NM_032119	exon33	c.G7206A	p.E2402E	AATGGAGGAAGGT	.	PASS	Atlas-SNP
MNT	4335	hgsc.bcm.edu	37	17	2290345	2290345	+	Silent	SNP	G	G	A	rs61742229	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	42	109	0	0.518519	0	G|0.958;A|0.042	0.042	strong	.	MNT	35	.	NM_020310	exon6	c.C1599T	p.A533A	CAGGCCGGCCGTG	.	PASS	Atlas-SNP
ANK2	287	hgsc.bcm.edu	37	4	114275942	114275942	+	Silent	SNP	C	C	G	rs3796928	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	74	154	0	0.477419	0	C|0.884;G|0.116	0.116	strong	.	ANK2	576	.	NM_001148	exon38	c.C6168G	p.L2056L	GAGACTCCCGGTA	.	PASS	Atlas-SNP
KIF1B	23095	hgsc.bcm.edu	37	1	10364057	10364057	+	Silent	SNP	A	A	G	rs41274462	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	28	61	0	0.595745	0	A|0.984;G|0.016	0.016	strong	.	KIF1B	242	.	NM_183416	exon21	c.A2814G	p.T938T	GATAACAAAGCAG	.	PASS	Atlas-SNP
MSH5	4439	hgsc.bcm.edu	37	6	31727897	31727897	+	Silent	SNP	C	C	T	rs3115672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	57	106	0	0.410072	0	C|0.923;T|0.077	0.077	strong	MSH5_ENST00000375742,bladder,carcinoma,+1,2	MSH5	108	2	NM_025259	exon19	c.C1767T	p.T589T	CCGAACCTTTGTG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549583	32549583	+	Missense_Mutation	SNP	T	T	C	rs17433947	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	372	37	185	0	0.0994624	0	.	.	weak	.	HLA-DRB1	41	.	NM_002124	exon3	c.A403G	p.T135A	GCTGGGTCTTTGA	.	PASS	Atlas-SNP
PODXL	5420	hgsc.bcm.edu	37	7	131195712	131195712	+	Missense_Mutation	SNP	G	G	A	rs12670788	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	463	211	439	1	0.455724	0.0022779	G|0.634;A|0.366	0.366	strong	.	PODXL	53	.	NM_001018111	exon2	c.C581T	p.S194L	TGCGTCGAAGTGG	.	PASS	Atlas-SNP
OR2M3	127062	hgsc.bcm.edu	37	1	248366702	248366702	+	Silent	SNP	G	G	A	rs4916112	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	347	346	291	0	0.997118	0	G|0.470;A|0.530	0.530	strong	.	OR2M3	116	.	NM_001004689	exon1	c.G333A	p.E111E	CTCTGAGTGCTTT	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859906	144859906	+	Missense_Mutation	SNP	G	G	T	rs182136884	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306	17	251	0	0.0555556	0	G|1.000;T|0.000	0.000	strong	.	PDE4DIP	817	.	NM_014644	exon38	c.C6178A	p.Q2060K	TGCTCTGCTCCAG	.	PASS	Atlas-SNP
CCDC111	201973	hgsc.bcm.edu	37	4	185599489	185599489	+	Silent	SNP	G	G	A	rs34985821	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	410	201	337	1	0.490244	0.00296736	G|0.904;A|0.096	0.096	strong	.	CCDC111	43	.	NM_152683	exon8	c.G948A	p.Q316Q	TATACAGTCAAAA	.	PASS	Atlas-SNP
C9orf173	441476	hgsc.bcm.edu	37	9	140147273	140147273	+	Missense_Mutation	SNP	C	C	T	rs61759822	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	32	81	0	0.492308	0	C|0.847;T|0.153	0.153	strong	.	C9orf173	19	.	NM_001004353	exon5	c.C652T	p.L218F	TCCCTGCTTCAGG	.	PASS	Atlas-SNP
MIA3	375056	hgsc.bcm.edu	37	1	222802376	222802376	+	Missense_Mutation	SNP	A	A	G	rs2936052	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	96	76	0	1	0	A|0.758;G|0.242	0.242	strong	MIA3,NS,carcinoma,0,2	MIA3	167	2	NM_198551	exon4	c.A1814G	p.K605R	GGGCCAAACTGCA	.	PASS	Atlas-SNP
RFPL2	10739	hgsc.bcm.edu	37	22	32589090	32589090	+	Missense_Mutation	SNP	C	C	T	rs8135276	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	285	155	265	0	0.54386	0	C|0.875;T|0.125	0.125	strong	.	RFPL2	81	.	NM_001098527	exon4	c.G355A	p.A119T	AGACGGCGCATCC	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2835989	2835989	+	Missense_Mutation	SNP	A	A	C	rs143238998		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	47	163	0	0.376	0	.	.	weak	.	ARSD	47	.	NM_001669	exon5	c.T719G	p.F240C	ATGAAAAACAGGC	.	PASS	Atlas-SNP
BUB1B	701	hgsc.bcm.edu	37	15	40488851	40488851	+	Silent	SNP	G	G	A	rs1047130	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	73	108	0	0.51049	0	G|0.793;A|0.207	0.207	strong	.	BUB1B	71	.	NM_001211	exon9	c.G1164A	p.A388A	GCAAGCGTCTGAG	.	PASS	Atlas-SNP
COL4A5	1287	hgsc.bcm.edu	37	X	107867476	107867476	+	Silent	SNP	A	A	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	16	110	0	0.363636	0	.	.	none	.	COL4A5	262	.	NM_000495	exon34	c.A2928T	p.G976G	ACCTGGAGTTTCA	.	PASS	Atlas-SNP
NLRC5	84166	hgsc.bcm.edu	37	16	57080528	57080528	+	Missense_Mutation	SNP	C	C	A	rs289723	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	106	202	0	0.54359	0	T|0.002;G|0.001	.	strong	.	NLRC5	186	.	NM_032206	exon21	c.C3313A	p.Q1105K	TTCCGTCAGCGCT	.	PASS	Atlas-SNP
ADAMTS10	81794	hgsc.bcm.edu	37	19	8651562	8651562	+	Silent	SNP	A	A	G	rs4476282	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	51	109	0	0.481132	0	A|0.790;G|0.210	0.210	strong	ADAMTS10,NS,carcinoma,0,2	ADAMTS10	132	2	NM_030957	exon20	c.T2283C	p.P761P	GGTCCCAGGCAGC	.	PASS	Atlas-SNP
CYP26B1	56603	hgsc.bcm.edu	37	2	72361960	72361960	+	Missense_Mutation	SNP	A	A	G	rs2241057	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	77	164	0	0.450292	0	A|0.814;G|0.186	0.186	strong	.	CYP26B1	73	.	NM_019885	exon4	c.T791C	p.L264S	GCGTCCAAGTAGT	.	PASS	Atlas-SNP
RNF25	64320	hgsc.bcm.edu	37	2	219529881	219529881	+	Silent	SNP	G	G	A	rs2303564	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	284	147	269	0	0.517606	0	G|0.936;A|0.064	0.064	strong	.	RNF25	40	.	NM_022453	exon8	c.C663T	p.P221P	TACCATGGGCTGT	.	PASS	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	37	3	46010007	46010007	+	Silent	SNP	T	T	C	rs13071283	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	28	59	0	0.459016	0	T|0.917;C|0.083	0.083	strong	.	FYCO1	115	.	NM_024513	exon8	c.A819G	p.Q273Q	CTGCAGTTGCTCC	.	PASS	Atlas-SNP
PSG11	5680	hgsc.bcm.edu	37	19	43523026	43523026	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	5	295	2	0.0185874	0.00677966	.	.	none	PSG11,NS,carcinoma,+1,1	PSG11	57	1	NM_002785	exon3	c.T605C	p.L202P	AGAAAGAGGGTCC	.	scavenged	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859817	144859817	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	402	26	307	0	0.0646766	0	.	.	none	.	PDE4DIP	817	.	NM_014644	exon38	c.C6267T	p.S2089S	GTTAATGGAGGAG	.	PASS	Atlas-SNP
SPAG16	79582	hgsc.bcm.edu	37	2	214727221	214727221	+	Missense_Mutation	SNP	A	A	C	rs2042791	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	84	173	1	0.509091	0.00578035	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
ACTR3C	653857	hgsc.bcm.edu	37	7	149981856	149981856	+	Missense_Mutation	SNP	G	G	A	rs117425825	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	40	84	0	0.421053	0	G|0.976;A|0.024	0.024	strong	.	.	.	.	NM_001164459	exon6	c.C550T	p.R184C	GCGGACGCCGCAC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092971	1092971	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	6	114	1	0.0495868	0.00877193	.	.	none	MUC2_ENST00000441003,NS,carcinoma,0,1	MUC2	614	1	NM_002457	exon30	c.C4790T	p.T1597I	CCCCAACACCCAC	.	scavenged	Atlas-SNP
SPP2	6694	hgsc.bcm.edu	37	2	234959642	234959642	+	Missense_Mutation	SNP	C	C	T	rs34347825	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	91	176	0	0.494565	0	C|0.995;T|0.005	0.005	strong	.	SPP2	35	.	NM_006944	exon2	c.C113T	p.S38F	ATCCATCCTCCTT	.	PASS	Atlas-SNP
CORO7	79585	hgsc.bcm.edu	37	16	4445327	4445327	+	Missense_Mutation	SNP	C	C	T	rs3747579	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	46	88	0	0.446602	0	C|0.451;T|0.549	0.549	strong	CORO7,NS,carcinoma,0,1	CORO7	73	1	NM_024535	exon7	c.G578A	p.R193Q	AAGATCCGCAGCT	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41244000	41244000	+	Missense_Mutation	SNP	T	T	C	rs16942	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	50	119	0	0.480769	0	T|0.695;C|0.305	0.305	strong	BRCA1,NS,carcinoma,0,1	BRCA1	304	1	NM_007300	exon10	c.A3548G	p.K1183R	TCTCCTTTCTGGA	.	PASS	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167023573	167023573	+	Missense_Mutation	SNP	C	C	T	rs140166106	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	299	158	240	0	0.528428	0	C|0.989;T|0.011	0.011	strong	.	ZBBX	299	.	NM_024687	exon17	c.G1583A	p.S528N	TCCTTGCTTTCAA	.	PASS	Atlas-SNP
C12orf54	121273	hgsc.bcm.edu	37	12	48888594	48888594	+	Missense_Mutation	SNP	C	C	T	rs11458	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	45	102	0	0.483871	0	C|0.697;T|0.303	0.303	strong	.	C12orf54	11	.	NM_152319	exon8	c.C256T	p.P86S	AGGCCTCCAGATT	.	PASS	Atlas-SNP
CPA4	51200	hgsc.bcm.edu	37	7	129950740	129950740	+	Missense_Mutation	SNP	G	G	T	rs2171492	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	38	73	0	0.469136	0	G|0.677;T|0.323	0.323	strong	.	CPA4	47	.	NM_016352	exon9	c.G907T	p.G303C	TTCAAGGGCTTCA	.	PASS	Atlas-SNP
UGT2B17	7367	hgsc.bcm.edu	37	4	69416556	69416556	+	Silent	SNP	T	T	C	rs76661554		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	339	110	1	0	0.324484	0	T|0.250;C|0.750	0.750	weak	.	UGT2B17	34	.	NM_001077	exon5	c.A1152G	p.A384A	GTAGATTGCCTCA	.	PASS	Atlas-SNP
NLRP10	338322	hgsc.bcm.edu	37	11	7981521	7981521	+	Silent	SNP	C	C	T	rs11608118	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	53	89	0	0.417323	0	C|0.930;T|0.070	0.070	strong	.	NLRP10	146	.	NM_176821	exon2	c.G1638A	p.K546K	AAAATGCTTCAGA	.	PASS	Atlas-SNP
GP6	51206	hgsc.bcm.edu	37	19	55526359	55526359	+	Missense_Mutation	SNP	A	A	T	rs1654413	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	17	40	0	1	0	A|0.225;T|0.775	0.775	strong	GP6,colon,carcinoma,0,1	GP6	55	1	NM_016363	exon8	c.T950A	p.L317Q	CGGGTCAGCGGGA	.	PASS	Atlas-SNP
SLC26A9	115019	hgsc.bcm.edu	37	1	205896647	205896647	+	Silent	SNP	A	A	G	rs34803033	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	59	136	0	0.457364	0	A|0.897;G|0.103	0.103	strong	.	SLC26A9	176	.	NM_134325	exon10	c.T1188C	p.A396A	ATCCACAGCCAGA	.	PASS	Atlas-SNP
C9orf173	441476	hgsc.bcm.edu	37	9	140147152	140147152	+	Silent	SNP	C	C	G	rs28376526	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	38	103	0	0.584615	0	C|0.388;G|0.612	0.612	strong	.	C9orf173	19	.	NM_001004353	exon5	c.C531G	p.P177P	CCGGCCCGCCTTC	.	PASS	Atlas-SNP
OR56A4	120793	hgsc.bcm.edu	37	11	6023640	6023640	+	Missense_Mutation	SNP	T	T	C	rs11040249	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	149	123	0	1	0	T|0.797;C|0.203	0.203	strong	.	OR56A4	66	.	NM_001005179	exon1	c.A739G	p.I247V	AAGTGATGTCATC	.	PASS	Atlas-SNP
PER1	5187	hgsc.bcm.edu	37	17	8046772	8046772	+	Missense_Mutation	SNP	C	C	G	rs2585405	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	199	292	0	1	0	C|0.170;G|0.830	0.830	strong	.	PER1	104	.	NM_002616	exon19	c.G2884C	p.A962P	TCGGGGCGAGGGC	.	PASS	Atlas-SNP
CFL1	1072	hgsc.bcm.edu	37	11	65623519	65623519	+	Silent	SNP	G	G	A	rs4621	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	234	193	0	0.987342	0	G|0.491;A|0.509	0.509	strong	.	CFL1	15	.	NM_005507	exon2	c.C198T	p.D66D	GTAGGGGTCGTCG	.	PASS	Atlas-SNP
MDM1	56890	hgsc.bcm.edu	37	12	68708869	68708869	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	315	4	252	0	0.0126984	0	.	.	none	MDM1,NS,carcinoma,-1,1	MDM1	74	1	NM_017440	exon9	c.T1358C	p.V453A	TTCTGTACGTCTT	.	scavenged	Atlas-SNP
ACAT2	39	hgsc.bcm.edu	37	6	160198359	160198359	+	Silent	SNP	C	C	T	rs3464	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	83	174	0	0.466292	0	C|0.797;T|0.203	0.203	strong	.	ACAT2	32	.	NM_005891	exon7	c.C783T	p.V261V	AGCTGTCGTTCTT	.	PASS	Atlas-SNP
C1orf186	440712	hgsc.bcm.edu	37	1	206239415	206239415	+	Silent	SNP	C	C	T	rs28639473	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	74	159	0	0.468354	0	C|0.936;T|0.064	0.064	strong	.	C1orf186	26	.	NM_001007544	exon6	c.G483A	p.L161L	CTCAGACAGAGCA	.	PASS	Atlas-SNP
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1643255	1643255	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	231	14	337	13	0.0606061	0.0385757	.	.	none	KRTAP5-4,NS,carcinoma,0,1	KRTAP5-4	78	1	NM_001012709	exon1	c.C69T	p.G23G	GCCACAGCCCCCA	.	scavenged	Atlas-SNP
UGT2B28	54490	hgsc.bcm.edu	37	4	70160309	70160309	+	Missense_Mutation	SNP	C	C	G	rs6828191	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	99	159	0	0.980198	0	C|0.601;G|0.399	0.399	strong	.	UGT2B28	101	.	NM_053039	exon6	c.C1372G	p.H458D	CCCCTGCATCGAG	.	PASS	Atlas-SNP
PSMG2	56984	hgsc.bcm.edu	37	18	12718593	12718593	+	Silent	SNP	A	A	G	rs2302768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	84	111	0	1	0	A|0.636;G|0.364	0.364	strong	.	PSMG2	17	.	NM_020232	exon4	c.A366G	p.S122S	TCTTTCAAGCAGT	.	PASS	Atlas-SNP
ZNF207	7756	hgsc.bcm.edu	37	17	30689985	30689985	+	Missense_Mutation	SNP	A	A	G	rs140641814		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	31	74	0	0.553571	0	A|1.000;G|0.000	0.000	weak	.	ZNF207	32	.	NM_001098507	exon7	c.A652G	p.M218V	CCTCTGATGCCTG	.	PASS	Atlas-SNP
CA9	768	hgsc.bcm.edu	37	9	35679251	35679251	+	Missense_Mutation	SNP	A	A	G	rs3829078	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	113	209	0	0.472803	0	A|0.932;G|0.068	0.068	strong	.	CA9	48	.	NM_001216	exon7	c.A977G	p.Q326R	ACTTCCAATATGA	.	PASS	Atlas-SNP
AKR1C4	1109	hgsc.bcm.edu	37	10	5242164	5242164	+	Silent	SNP	A	A	G	rs17306779	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	114	203	2	0.518182	0.00985222	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
TSPAN17	26262	hgsc.bcm.edu	37	5	176081907	176081907	+	Silent	SNP	C	C	T	rs11267007	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	55	177	0	0.268293	0	C|0.791;G|0.000;N|0.001;T|0.208	0.208	strong	TSPAN17,NS,carcinoma,0,1	TSPAN17	33	1	NM_001006616	exon5	c.C468T	p.C156C	TTGCTGCGGAGCC	.	PASS	Atlas-SNP
GFAP	2670	hgsc.bcm.edu	37	17	42987523	42987523	+	Missense_Mutation	SNP	G	G	A	rs9908084	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	295	160	319	1	0.542373	0.0031348	G|0.911;A|0.089	0.089	strong	.	GFAP	88	.	NM_001131019	exon8	c.C1277T	p.T426M	GGCGGCGTTCCAT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	38	59	0	0.520548	0	T|0.816;C|0.184	0.184	strong	.	CUL3	96	.	NM_001257198	exon14	c.A2010G	p.Q670Q	TGTGAATTGATCA	.	PASS	Atlas-SNP
C16orf71	146562	hgsc.bcm.edu	37	16	4790446	4790446	+	Missense_Mutation	SNP	C	C	T	rs35599524	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	55	82	0	0.491071	0	C|0.981;T|0.019	0.019	strong	.	C16orf71	46	.	NM_139170	exon4	c.C569T	p.S190L	CTGCCTCACAAGA	.	PASS	Atlas-SNP
PLA2R1	22925	hgsc.bcm.edu	37	2	160885418	160885418	+	Missense_Mutation	SNP	G	G	C	rs35771982	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	285	327	0	0.996503	0	G|0.655;C|0.345	0.345	strong	.	PLA2R1	153	.	NM_001195641	exon5	c.C898G	p.H300D	CAGCGTGTTCATC	.	PASS	Atlas-SNP
ANKRD12	23253	hgsc.bcm.edu	37	18	9255784	9255784	+	Missense_Mutation	SNP	C	C	A	rs72939232	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	75	123	0	0.609756	0	C|0.930;A|0.070	0.070	strong	.	ANKRD12	167	.	NM_015208	exon9	c.C2519A	p.T840N	GAAAAACCTTTGA	.	PASS	Atlas-SNP
ZFR	51663	hgsc.bcm.edu	37	5	32400266	32400266	+	Missense_Mutation	SNP	A	A	G	rs1051489	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	63	135	0	0.480916	0	A|0.734;G|0.266	0.266	strong	.	ZFR	98	.	NM_016107	exon9	c.T1559C	p.I520T	CCTTTTATGTCTT	.	PASS	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	37	16	15111218	15111218	+	Missense_Mutation	SNP	C	C	T	rs75456399		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	40	135	0	0.251572	0	.	.	weak	.	PDXDC1	59	.	NM_015027	exon11	c.C902T	p.P301L	CTGGCCCGTGGCT	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1251803	1251803	+	Silent	SNP	C	C	T	rs9922076	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	94	186	0	0.537143	0	C|0.925;T|0.075	0.075	strong	CACNA1H_ENST00000358590,NS,carcinoma,0,2	CACNA1H	317	2	NM_021098	exon9	c.C1353T	p.S451S	CTTCTCCGAGCCT	.	PASS	Atlas-SNP
UNC5C	8633	hgsc.bcm.edu	37	4	96256616	96256616	+	Silent	SNP	A	A	G	rs4699423	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	116	234	0	0.43609	0	A|0.582;G|0.418	0.418	strong	.	UNC5C	141	.	NM_003728	exon2	c.T291C	p.S97S	CCATTCACTATTA	.	PASS	Atlas-SNP
ABCC1	4363	hgsc.bcm.edu	37	16	16228242	16228242	+	Silent	SNP	G	G	A	rs2230671	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	23	73	0	0.370968	0	A|0.144;C|0.214;G|0.608;T|0.034	0.144	strong	.	ABCC1	156	.	NM_004996	exon28	c.G4002A	p.S1334S	GAAGTCGTCCCTG	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121401996	121401996	+	Missense_Mutation	SNP	T	T	G	rs56300302	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	59	208	1	0.36875	0.00480769	T|0.984;G|0.016	0.016	strong	C6orf170,NS,carcinoma,-1,1	C6orf170	146	1	NM_152730	exon32	c.A3695C	p.E1232A	ATGTATTCAAAAT	.	scavenged	Atlas-SNP
COG2	22796	hgsc.bcm.edu	37	1	230829139	230829139	+	Silent	SNP	A	A	G	rs1051038	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	94	226	1	0.472362	0.00442478	A|0.735;G|0.265	0.265	strong	.	COG2	61	.	NM_007357	exon18	c.A2217G	p.X739X	GCCTTAAGCATCT	.	PASS	Atlas-SNP
TTC28	23331	hgsc.bcm.edu	37	22	28504183	28504183	+	Silent	SNP	G	G	A	rs9625408	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	70	123	0	0.546875	0	G|0.949;A|0.051	0.051	strong	.	TTC28	84	.	NM_001145418	exon7	c.C1650T	p.R550R	TGAGGCGCGGTCA	.	PASS	Atlas-SNP
RAB39A	54734	hgsc.bcm.edu	37	11	107833065	107833065	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	66	116	0	0.488889	0	.	.	none	.	.	.	.	NM_017516	exon2	c.A621C	p.E207D	TGAGGAAGCAGTA	.	PASS	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	37	4	123171659	123171659	+	Missense_Mutation	SNP	T	T	A	rs56363411	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	98	126	0	1	0	T|0.982;A|0.018	0.018	strong	.	KIAA1109	424	.	NM_015312	exon35	c.T5853A	p.D1951E	CTCTGATGATAAT	.	PASS	Atlas-SNP
KCNQ1	3784	hgsc.bcm.edu	37	11	2869188	2869188	+	Silent	SNP	C	C	T	rs11601907	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	111	100	1	1	0.01	C|0.892;T|0.108	0.108	strong	.	KCNQ1	60	.	NM_000218	exon16	c.C1986T	p.Y662Y	CACCTACGAGCAG	.	PASS	Atlas-SNP
THSD7A	221981	hgsc.bcm.edu	37	7	11676107	11676107	+	Silent	SNP	G	G	A	rs61996270	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	25	59	0	0.373134	0	G|0.972;A|0.028	0.028	strong	.	THSD7A	219	.	NM_015204	exon2	c.C672T	p.P224P	CTGCGGGGGCGCC	.	PASS	Atlas-SNP
PIWIL4	143689	hgsc.bcm.edu	37	11	94322353	94322353	+	Silent	SNP	G	G	A	rs11020846	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	99	197	0	0.515625	0	G|0.793;A|0.207	0.207	strong	.	PIWIL4	70	.	NM_152431	exon8	c.G981A	p.Q327Q	CTTTCAGAAGCGG	.	PASS	Atlas-SNP
TNP2	7142	hgsc.bcm.edu	37	16	11362729	11362729	+	Missense_Mutation	SNP	G	G	A	rs11640138	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	35	75	0	0.479452	0	G|0.637;A|0.363	0.363	strong	TNP2,NS,carcinoma,+2,1	TNP2	15	1	NM_005425	exon1	c.C391T	p.R131W	AGCTCCGCGTCTT	.	PASS	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	37	9	100071728	100071728	+	Silent	SNP	G	G	A	rs3747507	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	52	124	0	0.4	0	G|0.774;A|0.226	0.226	strong	.	.	.	.	NM_020893	exon3	c.G234A	p.R78R	CACCAGGAAGCGG	.	PASS	Atlas-SNP
GAS6	2621	hgsc.bcm.edu	37	13	114531565	114531565	+	Silent	SNP	C	C	G	rs8191975	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	62	156	0	0.439716	0	C|0.892;G|0.108	0.108	strong	GAS6_ENST00000357389,NS,carcinoma,-2,3	GAS6	75	3	NM_000820	exon11	c.G1263C	p.L421L	CACGGTCAGGTTC	.	PASS	Atlas-SNP
TMA16	55319	hgsc.bcm.edu	37	4	164440581	164440581	+	Missense_Mutation	SNP	T	T	C	rs1561736	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	119	241	0	0.497908	0	T|0.582;C|0.418	0.418	strong	C4orf43,NS,carcinoma,0,1	.	.	1	NM_018352	exon7	c.T527C	p.I176T	AAACTATTATAAC	.	PASS	Atlas-SNP
MLH1	4292	hgsc.bcm.edu	37	3	37089131	37089131	+	Missense_Mutation	SNP	A	A	C	rs63750449	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	80	130	0	0.597015	0	A|0.995;C|0.005	0.005	strong	MLH1,colon,carcinoma,0,5	MLH1	226	5	NM_000249	exon16	c.A1853C	p.K618T	AGAAGAAGGCTGA	.	PASS	Atlas-SNP
RPGR	6103	hgsc.bcm.edu	37	X	38147269	38147269	+	Missense_Mutation	SNP	G	G	A	rs41312104	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	89	240	0	0.978022	0	G|0.983;A|0.017	0.017	strong	.	RPGR	175	.	NM_001034853	exon14	c.C1598T	p.T533M	TCCTGCGTCAGTT	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56247600	56247600	+	Missense_Mutation	SNP	C	C	A	rs9944810	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	260	258	322	0	0.992308	0	A|0.485;C|0.515;G|0.000;T|0.000	0.485	strong	.	ALPK2	487	.	NM_052947	exon4	c.G408T	p.R136S	ATTTGCCCTTTCT	.	PASS	Atlas-SNP
EIF4G1	1981	hgsc.bcm.edu	37	3	184046470	184046470	+	Silent	SNP	C	C	T	rs2230571	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	56	91	0	0.370861	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
PPP1R17	10842	hgsc.bcm.edu	37	7	31732084	31732084	+	Missense_Mutation	SNP	T	T	G	rs36047130	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	45	117	0	0.441176	0	T|0.979;G|0.021	0.021	strong	.	.	.	.	NM_006658	exon2	c.T29G	p.L10R	AGCCACTGGAACT	.	PASS	Atlas-SNP
NUP107	57122	hgsc.bcm.edu	37	12	69115698	69115698	+	Silent	SNP	G	G	A	rs17851475	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	70	105	0	0.526316	0	G|0.782;A|0.218	0.218	strong	.	NUP107	88	.	NM_020401	exon16	c.G1389A	p.Q463Q	AGAACAGGAGATC	.	PASS	Atlas-SNP
TMEM2	23670	hgsc.bcm.edu	37	9	74345158	74345158	+	Silent	SNP	G	G	A	rs25694	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	37	70	0	0.440476	0	G|0.935;A|0.065	0.065	strong	.	TMEM2	112	.	NM_013390	exon9	c.C1785T	p.T595T	CCCAATGGTGTCT	.	PASS	Atlas-SNP
TNFSF13	8741	hgsc.bcm.edu	37	17	7462581	7462581	+	Silent	SNP	G	G	C	rs12942687	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	123	232	0	0.539474	0	G|0.989;C|0.011	0.011	strong	.	TNFSF13	12	.	NM_001198623	exon1	c.G225C	p.G75G	GAATGGGGAAGGG	.	PASS	Atlas-SNP
ECHDC3	79746	hgsc.bcm.edu	37	10	11805339	11805339	+	Silent	SNP	C	C	T	rs17850531	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	17	41	0	0.354167	0	C|0.831;T|0.169	0.169	strong	.	ECHDC3	12	.	NM_024693	exon5	c.C708T	p.I236I	GCGGATCGCTAGG	.	PASS	Atlas-SNP
ITLN1	55600	hgsc.bcm.edu	37	1	160851894	160851894	+	Silent	SNP	G	G	A	rs55974765		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	135	183	0	0.579399	0	.	.	weak	.	ITLN1	45	.	NM_017625	exon4	c.C258T	p.H86H	ATTCTCGTGCACG	.	PASS	Atlas-SNP
SARS2	54938	hgsc.bcm.edu	37	19	39416887	39416887	+	Silent	SNP	C	C	T	rs11544093	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	20	33	0	0.454545	0	C|0.842;T|0.158	0.158	strong	.	SARS2	33	.	NM_001145901	exon2	c.G321A	p.E107E	CTCTTCCTCCAGG	.	PASS	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	37	3	57494138	57494138	+	Missense_Mutation	SNP	A	A	C	rs6445902	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	19	62	0	0.404255	0	A|0.746;C|0.254	0.254	strong	.	DNAH12	182	.	NM_198564	exon7	c.T672G	p.D224E	AACTGTATCAGCA	.	PASS	Atlas-SNP
TMEM63B	55362	hgsc.bcm.edu	37	6	44115169	44115169	+	Missense_Mutation	SNP	G	G	A	rs4714759	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	259	113	167	0	0.436293	0	G|0.903;A|0.097	0.097	strong	TMEM63B,NS,carcinoma,0,1	TMEM63B	77	1	NM_018426	exon12	c.G919A	p.V307M	GAGAACGTGCCTA	.	PASS	Atlas-SNP
TFF3	7033	hgsc.bcm.edu	37	21	43733628	43733628	+	Missense_Mutation	SNP	C	C	T	rs118095917	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	25	58	0	0.446429	0	C|0.996;T|0.004	0.004	strong	.	TFF3	9	.	NM_003226	exon2	c.G238A	p.V80M	AAGGCACTCCAGG	.	PASS	Atlas-SNP
PMS2	5395	hgsc.bcm.edu	37	7	6026988	6026988	+	Missense_Mutation	SNP	G	G	A	rs1805321	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	59	104	0	0.483607	0	G|0.639;A|0.361	0.361	strong	.	PMS2	88	.	NM_000535	exon11	c.C1408T	p.P470S	TCTGAGGTCTCAG	.	PASS	Atlas-SNP
ESPNL	339768	hgsc.bcm.edu	37	2	239039075	239039075	+	Missense_Mutation	SNP	G	G	T	rs13006204	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	31	61	0	0.96875	0	G|0.611;T|0.389	0.389	strong	.	ESPNL	63	.	NM_194312	exon9	c.G1720T	p.A574S	GAGCCCGCAGGGT	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13701536	13701536	+	Missense_Mutation	SNP	T	T	C	rs3734110	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	68	97	0	0.653846	0	T|0.482;C|0.518	0.518	strong	DNAH5,NS,carcinoma,+2,1	DNAH5	868	1	NM_001369	exon77	c.A13348G	p.I4450V	TAGAAATCCAAGA	.	PASS	Atlas-SNP
FBXO44	93611	hgsc.bcm.edu	37	1	11718859	11718859	+	Missense_Mutation	SNP	C	C	T	rs150816569	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	54	67	0	0.701299	0	C|0.992;T|0.008	0.008	strong	.	FBXO44	20	.	NM_183412	exon4	c.C430T	p.R144C	CGCGCACGCGCCT	.	PASS	Atlas-SNP
LARP1B	55132	hgsc.bcm.edu	37	4	129043286	129043286	+	Silent	SNP	C	C	T	rs3733320	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	116	124	0	1	0	C|0.423;T|0.577	0.577	strong	.	LARP1B	120	.	NM_178043	exon11	c.C1467T	p.Y489Y	CTTATACTATTAT	.	PASS	Atlas-SNP
STOX2	56977	hgsc.bcm.edu	37	4	184931818	184931818	+	Silent	SNP	G	G	A	rs4861597	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	226	114	210	0	0.504425	0	G|0.583;A|0.417	0.417	strong	.	STOX2	142	.	NM_020225	exon3	c.G1827A	p.T609T	TGAGACGGTGCTC	.	PASS	Atlas-SNP
A2ML1	144568	hgsc.bcm.edu	37	12	9016456	9016456	+	Missense_Mutation	SNP	C	C	T	rs73040625	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	86	157	0	0.544304	0	C|0.949;T|0.051	0.051	strong	.	A2ML1	199	.	NM_144670	exon29	c.C3569T	p.A1190V	AGCCTGCGGCTGT	.	PASS	Atlas-SNP
CAST	831	hgsc.bcm.edu	37	5	96086334	96086334	+	Missense_Mutation	SNP	G	G	C	rs754615	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	103	120	0	1	0	G|0.670;C|0.330	0.330	strong	.	CAST	58	.	NM_001042440	exon18	c.G1349C	p.C450S	CTGTGTGTCGGAC	.	PASS	Atlas-SNP
CCDC125	202243	hgsc.bcm.edu	37	5	68616331	68616331	+	Missense_Mutation	SNP	C	C	T	rs10471774	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	109	127	0	0.981982	0	C|0.689;T|0.311	0.311	strong	.	CCDC125	41	.	NM_176816	exon1	c.G37A	p.V13M	GCTGCACGTCTGA	.	PASS	Atlas-SNP
ALPK3	57538	hgsc.bcm.edu	37	15	85383640	85383640	+	Missense_Mutation	SNP	G	G	A	rs3803405	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	27	55	0	0.375	0	G|0.815;A|0.185	0.185	strong	.	ALPK3	289	.	NM_020778	exon5	c.G1736A	p.G579E	CACGGGGGCCTGG	.	PASS	Atlas-SNP
EGF	1950	hgsc.bcm.edu	37	4	110884396	110884396	+	Silent	SNP	A	A	G	rs11568953	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	66	148	0	0.5	0	A|0.990;G|0.010	0.010	strong	.	EGF	113	.	NM_001963	exon9	c.A1380G	p.E460E	CTGGGAATGTGAT	.	PASS	Atlas-SNP
CAMSAP3	57662	hgsc.bcm.edu	37	19	7675369	7675369	+	Silent	SNP	C	C	T	rs62113420	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	28	67	0	0.459016	0	C|0.897;T|0.103	0.103	strong	.	CAMSAP3	131	.	NM_001080429	exon8	c.C849T	p.C283C	GGTGTGCTTGAAG	.	PASS	Atlas-SNP
PDLIM5	10611	hgsc.bcm.edu	37	4	95506842	95506842	+	Silent	SNP	G	G	A	rs11097431	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	61	115	0	0.455224	0	G|0.784;A|0.216	0.216	strong	PDLIM5_ENST00000380180,NS,carcinoma,0,2	PDLIM5	76	2	NM_006457	exon6	c.G837A	p.Q279Q	AACTCAGTCTCGC	.	PASS	Atlas-SNP
C9orf129	445577	hgsc.bcm.edu	37	9	96097662	96097662	+	Missense_Mutation	SNP	G	G	A	rs79680372	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	532	211	449	0	0.396617	0	.	.	weak	.	C9orf129	18	.	NM_001098808	exon3	c.C359T	p.A120V	TTTGTCGCCCCTC	.	PASS	Atlas-SNP
KLHDC7A	127707	hgsc.bcm.edu	37	1	18807953	18807953	+	Missense_Mutation	SNP	C	C	A	rs11261022	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	41	99	0	0.706897	0	C|0.671;A|0.329	0.329	strong	.	KLHDC7A	60	.	NM_152375	exon1	c.C478A	p.R160S	TTCCCCCGCTTGG	.	PASS	Atlas-SNP
UBR5	51366	hgsc.bcm.edu	37	8	103306033	103306033	+	Silent	SNP	T	T	C	rs16869352	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	81	137	0	0.5625	0	T|0.957;C|0.043	0.043	strong	.	UBR5	285	.	NM_015902	exon34	c.A4389G	p.V1463V	TTGGAATACACGC	.	PASS	Atlas-SNP
SNAPC4	6621	hgsc.bcm.edu	37	9	139272045	139272045	+	Missense_Mutation	SNP	C	C	A	rs79283598	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	37	59	0	0.521127	0	C|0.976;A|0.024	0.024	strong	.	SNAPC4	82	.	NM_003086	exon21	c.G4234T	p.A1412S	TGTCTGCAAGTTC	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	2965244	2965244	+	Silent	SNP	T	T	C	rs3824271	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	45	73	0	0.5	0	T|0.176;C|0.824	0.824	strong	.	CSMD1	1469	.	NM_033225	exon45	c.A6831G	p.E2277E	ACCTATTTCGAAA	.	PASS	Atlas-SNP
SULT1A2	6799	hgsc.bcm.edu	37	16	28603721	28603721	+	Missense_Mutation	SNP	C	C	T	rs45583638	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	340	23	303	0	0.0676471	0	C|0.683;T|0.317	0.317	strong	SULT1A2,colon,carcinoma,0,4	SULT1A2	27	4	NM_001054	exon7	c.G638A	p.R213H	AGGGAGCGCCCCA	.	PASS	Atlas-SNP
STAMBP	10617	hgsc.bcm.edu	37	2	74077556	74077556	+	Silent	SNP	G	G	T	rs77000353	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	185	204	0	0.989305	0	G|0.988;T|0.012	0.012	strong	.	STAMBP	37	.	NM_006463	exon8	c.G921T	p.G307G	TGCTGGGTCTGAT	.	PASS	Atlas-SNP
KRTAP10-1	386677	hgsc.bcm.edu	37	21	45959773	45959773	+	Silent	SNP	C	C	T	rs79593866		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	10	184	4	0.0649351	0.0217391	.	.	weak	KRTAP10-1,NS,carcinoma,0,1	KRTAP10-1	34	1	NM_198691	exon1	c.G261A	p.P87P	GCAAGCCGGCTGG	.	scavenged	Atlas-SNP
CD3E	916	hgsc.bcm.edu	37	11	118178007	118178007	+	Silent	SNP	C	C	T	rs1126924	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	29	55	0	0.483333	0	C|0.768;T|0.232	0.232	strong	CD3E,NS,carcinoma,0,1	CD3E	23	1	NM_000733	exon3	c.C54T	p.G18G	AGTTGGCGTTTGG	.	PASS	Atlas-SNP
NPEPL1	79716	hgsc.bcm.edu	37	20	57268867	57268867	+	Silent	SNP	C	C	A	rs3746396	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	100	222	0	0.490196	0	C|0.647;A|0.353	0.353	strong	.	NPEPL1	36	.	NM_024663	exon2	c.C225A	p.T75T	CGCCACCGTGGCT	.	PASS	Atlas-SNP
SHB	6461	hgsc.bcm.edu	37	9	37948724	37948724	+	Silent	SNP	T	T	C	rs3827519	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	30	76	0	0.491803	0	T|0.883;C|0.117	0.117	strong	SHB,NS,carcinoma,0,2	SHB	31	2	NM_003028	exon5	c.A1254G	p.G418G	GGCGTCTCCTCTG	.	PASS	Atlas-SNP
ASAP1	50807	hgsc.bcm.edu	37	8	131072829	131072829	+	Missense_Mutation	SNP	T	T	C	rs117019764	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	128	200	1	0.50996	0.005	T|0.998;C|0.002	0.002	strong	.	ASAP1	133	.	NM_018482	exon28	c.A3188G	p.N1063S	ACCGTATTGATTT	.	PASS	Atlas-SNP
CDH5	1003	hgsc.bcm.edu	37	16	66432381	66432381	+	Missense_Mutation	SNP	T	T	C	rs16956504	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	38	77	0	0.469136	0	T|0.940;C|0.060	0.060	strong	.	CDH5	111	.	NM_001795	exon10	c.T1508C	p.I503T	CCGCAATAGACAA	.	PASS	Atlas-SNP
LCA5	167691	hgsc.bcm.edu	37	6	80228535	80228535	+	Missense_Mutation	SNP	T	T	G	rs34068461	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	88	239	0	0.411215	0	T|0.843;G|0.157	0.157	strong	.	LCA5	71	.	NM_001122769	exon2	c.A77C	p.D26A	TCAAAATCAGATA	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38120343	38120343	+	Missense_Mutation	SNP	A	A	G	rs71317067	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	658	18	558	12	0.0273556	0.0215054	A|0.500;G|0.500	0.500	weak	TRIOBP_ENST00000344404,NS,carcinoma,0,5	TRIOBP	262	5	NM_001039141	exon7	c.A1780G	p.T594A	AGAGCTACACGAG	.	scavenged	Atlas-SNP
IQCE	23288	hgsc.bcm.edu	37	7	2613062	2613062	+	Silent	SNP	T	T	C	rs61739566	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	104	106	0	0.990476	0	T|0.884;C|0.116	0.116	strong	.	IQCE	66	.	NM_152558	exon6	c.T405C	p.P135P	TGTCCCTGGGACT	.	PASS	Atlas-SNP
RCC1	1104	hgsc.bcm.edu	37	1	28861636	28861636	+	Silent	SNP	G	G	A	rs2066726	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	126	253	0	0.602871	0	G|0.728;A|0.272	0.272	strong	.	RCC1	61	.	NM_001048194	exon6	c.G609A	p.V203V	GGATGTGCCTGTG	.	PASS	Atlas-SNP
OR2T12	127064	hgsc.bcm.edu	37	1	248457993	248457993	+	Missense_Mutation	SNP	C	C	G	rs56024759		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	340	156	314	0	0.458824	0	.	.	weak	.	OR2T12	113	.	NM_001004692	exon1	c.G888C	p.K296N	GGCTTCCTTGACC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	125	227	0	0.437063	0	G|0.424;N|0.000	.	strong	.	ALMS1	384	.	NM_015120	exon19	c.G12086A	p.R4029K	TACTGAGGCCATT	.	PASS	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	37	2	33447202	33447202	+	Silent	SNP	C	C	T	rs2290448	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	63	166	0	0.488372	0	C|0.608;T|0.392	0.392	strong	.	LTBP1	317	.	NM_206943	exon9	c.C1860T	p.N620N	GGTTAACAACACC	.	PASS	Atlas-SNP
TMEM52	339456	hgsc.bcm.edu	37	1	1849529	1849529	+	Missense_Mutation	SNP	A	A	G	rs28640257	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	64	189	0	0.351648	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
ZNF268	10795	hgsc.bcm.edu	37	12	133768553	133768553	+	Missense_Mutation	SNP	A	A	T	rs61960670	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	67	146	0	0.523438	0	A|0.835;T|0.165	0.165	strong	.	ZNF268	71	.	NM_152943	exon5	c.A421T	p.M141L	CTGTGTATGGTGC	.	PASS	Atlas-SNP
PIWIL4	143689	hgsc.bcm.edu	37	11	94322352	94322352	+	Missense_Mutation	SNP	A	A	T	rs11020845	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	101	196	0	0.523316	0	A|0.793;T|0.207	0.207	strong	.	PIWIL4	70	.	NM_152431	exon8	c.A980T	p.Q327L	CCTTTCAGAAGCG	.	PASS	Atlas-SNP
DCAF13	25879	hgsc.bcm.edu	37	8	104427359	104427359	+	Missense_Mutation	SNP	A	A	C	rs3134295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	46	117	1	0.414414	0.00854701	A|0.537;C|0.463	0.463	strong	DCAF13,NS,carcinoma,0,1	DCAF13	66	1	NM_015420	exon1	c.A141C	p.R47S	GCACAGACACTAC	.	scavenged	Atlas-SNP
XYLT1	64131	hgsc.bcm.edu	37	16	17202801	17202801	+	Silent	SNP	G	G	A	rs34511974	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	121	136	0	0.991803	0	G|0.888;A|0.112	0.112	strong	XYLT1,colon,carcinoma,0,1	XYLT1	147	1	NM_022166	exon12	c.C2631T	p.P877P	GAGGACGGGGTTT	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	37	20	62378349	62378349	+	Silent	SNP	C	C	T	rs5019252	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	16	49	0	0.727273	0	C|0.724;T|0.276	0.276	strong	ZBTB46,rectum,carcinoma,0,1	ZBTB46	72	1	NM_025224	exon5	c.G1704A	p.E568E	GTCTTCCTCATCC	.	PASS	Atlas-SNP
OAF	220323	hgsc.bcm.edu	37	11	120099658	120099658	+	Missense_Mutation	SNP	A	A	G	rs2508489	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	80	117	0	0.987654	0	A|0.283;G|0.717	0.717	strong	.	OAF	12	.	NM_178507	exon4	c.A629G	p.H210R	GGGACCACGGGAA	.	PASS	Atlas-SNP
PALM2-AKAP2	445815	hgsc.bcm.edu	37	9	112900466	112900466	+	Missense_Mutation	SNP	C	C	T	rs61735424	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	24	76	0	0.413793	0	C|0.969;T|0.031	0.031	strong	.	PALM2-AKAP2	117	.	NM_007203	exon8	c.C2642T	p.A881V	ACAGGGCGCTCAG	.	PASS	Atlas-SNP
CCDC88B	283234	hgsc.bcm.edu	37	11	64124515	64124515	+	Silent	SNP	T	T	C	rs612448	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	96	132	0	0.536313	0	T|0.706;C|0.294	0.294	strong	CCDC88B_ENST00000359902,NS,carcinoma,-1,1	CCDC88B	89	1	NM_032251	exon27	c.T4380C	p.P1460P	AGGCCCTGAGGTA	.	PASS	Atlas-SNP
SNAP29	9342	hgsc.bcm.edu	37	22	21213416	21213416	+	Silent	SNP	A	A	G	rs1061064	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	32	80	0	0.372093	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
MYO1G	64005	hgsc.bcm.edu	37	7	45016621	45016621	+	Missense_Mutation	SNP	C	C	T	rs61739531	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	63	101	0	0.504	0	C|0.817;T|0.183	0.183	strong	MYO1G,bladder,carcinoma,+2,1	MYO1G	86	1	NM_033054	exon2	c.G145A	p.V49M	GGTTCACGGACAC	.	PASS	Atlas-SNP
ANKRD53	79998	hgsc.bcm.edu	37	2	71211815	71211815	+	Silent	SNP	G	G	A	rs3796098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	76	138	0	0.493506	0	G|0.837;A|0.163	0.163	strong	ANKRD53_ENST00000360589,NS,carcinoma,0,1	ANKRD53	55	1	NM_001115116	exon6	c.G978A	p.L326L	CTCTCTGGTCTCC	.	PASS	Atlas-SNP
UBE3B	89910	hgsc.bcm.edu	37	12	109972462	109972462	+	Missense_Mutation	SNP	G	G	A	rs374046452		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	37	147	0	0.212644	0	.	.	weak	.	UBE3B	116	.	NM_130466	exon28	c.G3082A	p.G1028S	CCAGGCGGCCGCC	.	PASS	Atlas-SNP
KRTAP10-9	386676	hgsc.bcm.edu	37	21	46047710	46047710	+	Silent	SNP	T	T	C	rs8131142	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	101	293	1	0.463303	0.00341297	T|0.339;C|0.661	0.661	strong	.	KRTAP10-9	24	.	NM_198690	exon1	c.T622C	p.L208L	TCCTCTTTGTGCT	.	PASS	Atlas-SNP
CDH8	1006	hgsc.bcm.edu	37	16	61687701	61687701	+	Silent	SNP	C	C	T	rs16963768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	44	82	1	0.571429	0.0121951	C|0.868;N|0.000	.	strong	CDH8,rectum,carcinoma,-1,1	CDH8	273	1	NM_001796	exon12	c.G2211A	p.T737T	CGGGGCCGTGGGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	463	221	471	0	0.477322	0	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
RALGAPB	57148	hgsc.bcm.edu	37	20	37199443	37199443	+	Silent	SNP	G	G	A	rs139543103	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	49	60	0	0.576471	0	G|0.991;A|0.009	0.009	strong	.	RALGAPB	134	.	NM_020336	exon28	c.G4095A	p.E1365E	GACAGAGATCAGT	.	PASS	Atlas-SNP
SMG1	23049	hgsc.bcm.edu	37	16	18853744	18853744	+	Silent	SNP	T	T	C	rs12926959	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	36	89	0	0.36	0	T|0.942;C|0.058	0.058	strong	.	SMG1	401	.	NM_015092	exon40	c.A6252G	p.K2084K	TGCACGTTTCTGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	134	262	0	0.529644	0	G|0.364;N|0.000	0.364	strong	.	UGT1A6	63	.	NM_001072	exon1	c.T19G	p.S7A	CTTCGCTCATTTC	.	PASS	Atlas-SNP
GBP3	2635	hgsc.bcm.edu	37	1	89479063	89479063	+	Missense_Mutation	SNP	G	G	A	rs4656077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	92	93	0	1	0	G|0.661;A|0.339	0.339	strong	.	GBP3	53	.	NM_018284	exon6	c.C673T	p.R225W	ACTTCCGGATACA	.	PASS	Atlas-SNP
NPC1	4864	hgsc.bcm.edu	37	18	21140432	21140432	+	Missense_Mutation	SNP	T	T	C	rs1805081	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	37	84	0	0.4625	0	T|0.733;C|0.267	0.267	strong	.	NPC1	114	.	NM_000271	exon6	c.A644G	p.H215R	ATCCCATGGACTG	.	PASS	Atlas-SNP
TIRAP	114609	hgsc.bcm.edu	37	11	126162607	126162607	+	Silent	SNP	G	G	A	rs3802814	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	40	69	0	0.487805	0	G|0.907;A|0.093	0.093	strong	.	TIRAP	37	.	NM_148910	exon5	c.G303A	p.Q101Q	CGCCCAGGACCTG	.	PASS	Atlas-SNP
FAM209A	200232	hgsc.bcm.edu	37	20	55100005	55100005	+	Silent	SNP	T	T	C	rs2426632	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	393	89	268	0	0.226463	0	T|0.974;C|0.026	0.026	strong	.	.	.	.	NM_001012971	exon1	c.T141C	p.N47N	GCAGAATCTACCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	49	124	0	0.457944	0	T|0.802;C|0.198	0.198	strong	.	MYH15	223	.	NM_014981	exon28	c.A3373G	p.T1125A	TTTGAGTCTGTAG	.	PASS	Atlas-SNP
CLDN5	7122	hgsc.bcm.edu	37	22	19511925	19511925	+	Nonsense_Mutation	SNP	G	G	A	rs885985	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	18	26	0	0.666667	0	G|0.554;A|0.446	0.446	strong	.	CLDN5	22	.	NM_001130861	exon1	c.C109T	p.Q37X	CCTCCTGGGTCTG	.	PASS	Atlas-SNP
ARHGEF37	389337	hgsc.bcm.edu	37	5	148989122	148989122	+	Silent	SNP	C	C	T	rs2400891	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	43	123	0	0.344	0	C|0.573;N|0.000	.	strong	ARHGEF37,NS,carcinoma,0,1	ARHGEF37	45	1	NM_001001669	exon4	c.C322T	p.L108L	ATATTTCTGGAAT	.	PASS	Atlas-SNP
TRAPPC11	60684	hgsc.bcm.edu	37	4	184614874	184614874	+	Silent	SNP	C	C	T	rs4862234	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	50	99	0	0.60241	0	C|0.756;T|0.244	0.244	strong	.	.	.	.	NM_021942	exon21	c.C2370T	p.T790T	GCTCACCGCTGGC	.	PASS	Atlas-SNP
MATN2	4147	hgsc.bcm.edu	37	8	98991221	98991221	+	Missense_Mutation	SNP	A	A	G	rs1869609	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	73	84	0	0.986486	0	T|0.009;G|0.459	0.459	strong	.	MATN2	165	.	NM_002380	exon6	c.A1066G	p.K356E	CCAGATAAAAAAA	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129906427	129906427	+	Missense_Mutation	SNP	C	C	A	rs41306015	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	255	123	286	0	0.482353	0	C|0.937;A|0.063	0.063	strong	.	MKI67	363	.	NM_002417	exon13	c.G3677T	p.G1226V	TTAAAGCCAGCCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	121	110	0	1	0	A|0.532;G|0.468	0.468	strong	.	MFSD6	58	.	NM_017694	exon3	c.A613G	p.R205G	GAAACAAGGCTCA	.	PASS	Atlas-SNP
SAMD9	54809	hgsc.bcm.edu	37	7	92734983	92734983	+	Missense_Mutation	SNP	A	A	G	rs6969691	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	107	213	0	0.469298	0	A|0.818;G|0.182	0.182	strong	.	SAMD9	239	.	NM_001193307	exon2	c.T428C	p.I143T	TCTTCTATGAGCT	.	PASS	Atlas-SNP
BSG	682	hgsc.bcm.edu	37	19	579627	579627	+	Silent	SNP	C	C	T	rs1803202	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	48	98	0	0.457143	0	C|0.866;T|0.134	0.134	strong	.	BSG	48	.	NM_001728	exon3	c.C543T	p.D181D	GGAGGACGCGCTG	.	PASS	Atlas-SNP
CCDC67	159989	hgsc.bcm.edu	37	11	93129483	93129483	+	Missense_Mutation	SNP	G	G	C	rs12288277	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	68	119	0	0.523077	0	C|0.236;G|0.764	0.236	strong	.	CCDC67	57	.	NM_181645	exon11	c.G1318C	p.E440Q	CCCGGAGAATACA	.	PASS	Atlas-SNP
ANKRD27	84079	hgsc.bcm.edu	37	19	33106621	33106621	+	Silent	SNP	C	C	T	rs405858	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	173	163	0	1	0	C|0.445;T|0.555	0.555	strong	ANKRD27,NS,carcinoma,-1,1	ANKRD27	86	1	NM_032139	exon22	c.G2118A	p.A706A	GGGGTCCGCTGCA	.	PASS	Atlas-SNP
COL6A6	131873	hgsc.bcm.edu	37	3	130300650	130300650	+	Silent	SNP	T	T	C	rs6439249	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	154	152	0	1	0	T|0.383;C|0.617	0.617	strong	.	COL6A6	497	.	NM_001102608	exon8	c.T3793C	p.L1265L	AATAGCTTGAAGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	149	152	0	0.993333	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
TMEM184A	202915	hgsc.bcm.edu	37	7	1587440	1587440	+	Missense_Mutation	SNP	G	G	A	rs61747419	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	58	118	0	0.517857	0	G|0.992;A|0.008	0.008	strong	.	TMEM184A	35	.	NM_001097620	exon8	c.C950T	p.S317F	GCCACGGAGGCGA	.	PASS	Atlas-SNP
PTCH2	8643	hgsc.bcm.edu	37	1	45293752	45293752	+	Silent	SNP	T	T	C	rs2295997	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	34	46	0	0.755556	0	T|0.813;C|0.187	0.187	strong	.	PTCH2	96	.	NM_001166292	exon14	c.A1821G	p.E607E	GCTGGCTTCACAG	.	PASS	Atlas-SNP
C17orf59	54785	hgsc.bcm.edu	37	17	8092694	8092694	+	Silent	SNP	T	T	G	rs8531	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	28	66	0	1	0	T|0.355;G|0.645	0.645	strong	.	C17orf59	19	.	NM_017622	exon1	c.A765C	p.P255P	GTCGATTGGGGGA	.	PASS	Atlas-SNP
SLC4A1	6521	hgsc.bcm.edu	37	17	42327847	42327847	+	Missense_Mutation	SNP	G	G	C	rs377326869	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	26	45	0	0.509804	0	.	.	alt	.	SLC4A1	104	.	NM_000342	exon20	c.C2715G	p.D905E	CACTTCGTCGTAT	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75977920	75977920	+	Silent	SNP	A	A	G	rs62027240	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	56	97	0	0.495575	0	A|0.620;G|0.380	0.380	strong	CSPG4,NS,carcinoma,0,1	CSPG4	175	1	NM_001897	exon4	c.T3912C	p.P1304P	CTGCACAGGGTCC	.	PASS	Atlas-SNP
EIF5B	9669	hgsc.bcm.edu	37	2	99995517	99995517	+	Silent	SNP	C	C	T	rs11896520	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	45	73	0	0.45	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
DEFB127	140850	hgsc.bcm.edu	37	20	139576	139576	+	Missense_Mutation	SNP	C	C	A	rs16995685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	110	208	1	0.5	0.00480769	C|0.718;A|0.282	0.282	strong	.	DEFB127	15	.	NM_139074	exon2	c.C211A	p.R71S	CCACCTCGTCCAA	.	PASS	Atlas-SNP
TDRD7	23424	hgsc.bcm.edu	37	9	100190780	100190780	+	Silent	SNP	A	A	G	rs1381532	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	73	131	0	0.548872	0	A|0.469;G|0.531	0.531	strong	.	TDRD7	78	.	NM_014290	exon2	c.A33G	p.L11L	GATGCTACGAGCT	.	PASS	Atlas-SNP
AP3D1	8943	hgsc.bcm.edu	37	19	2114175	2114175	+	Silent	SNP	T	T	C	rs55698722	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	93	128	0	0.560241	0	A|0.000;C|0.073;G|0.000;T|0.926	0.073	strong	.	AP3D1	81	.	NM_001261826	exon22	c.A2550G	p.K850K	TTTGTGTTTTTTC	.	PASS	Atlas-SNP
SLCO1B7	338821	hgsc.bcm.edu	37	12	21201663	21201663	+	Missense_Mutation	SNP	G	G	A	rs11045689	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	116	114	0	0.983051	0	G|0.507;A|0.493	0.493	strong	.	SLCO1B7	85	.	NM_001009562	exon8	c.G1012A	p.A338T	CTACCTGCTGTTG	.	PASS	Atlas-SNP
TRIM21	6737	hgsc.bcm.edu	37	11	4411471	4411471	+	Missense_Mutation	SNP	G	G	A	rs200488796	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	69	99	0	0.560976	0	G|1.000;A|0.000	0.000	strong	.	TRIM21	45	.	NM_003141	exon2	c.C169T	p.R57C	GAAAGCGCTGCCG	.	PASS	Atlas-SNP
SETMAR	6419	hgsc.bcm.edu	37	3	4354697	4354697	+	Missense_Mutation	SNP	G	G	A	rs6801634	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	80	146	0	0.457143	0	G|0.871;A|0.129	0.129	strong	.	SETMAR	30	.	NM_001243723	exon2	c.G272A	p.R91H	GTCTCCGCCATGG	.	PASS	Atlas-SNP
ADAT1	23536	hgsc.bcm.edu	37	16	75642801	75642801	+	Missense_Mutation	SNP	G	G	A	rs77029992	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	48	89	0	0.527473	0	G|0.983;A|0.017	0.017	strong	.	ADAT1	45	.	NM_012091	exon8	c.C1129T	p.R377C	CACTGCGGCTCTG	.	PASS	Atlas-SNP
GRIN3A	116443	hgsc.bcm.edu	37	9	104449294	104449294	+	Silent	SNP	G	G	A	rs33945236	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	96	213	0	0.472906	0	G|0.865;A|0.135	0.135	strong	GRIN3A,colon,carcinoma,0,1	GRIN3A	186	1	NM_133445	exon2	c.C888T	p.N296N	GGTGATGTTGATG	.	PASS	Atlas-SNP
CYP4F2	8529	hgsc.bcm.edu	37	19	15996820	15996820	+	Silent	SNP	G	G	A	rs2074900	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	89	166	0	0.494444	0	G|0.734;A|0.266	0.266	strong	.	CYP4F2	97	.	NM_001082	exon9	c.C1029T	p.H343H	TGCAAGGTGGTAC	.	PASS	Atlas-SNP
RHBG	57127	hgsc.bcm.edu	37	1	156347131	156347131	+	Missense_Mutation	SNP	G	G	A	rs2245623	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	370	142	291	0	0.383784	0	G|0.713;A|0.287	0.287	strong	.	RHBG	133	.	NM_020407	exon2	c.G227A	p.G76D	GCTTTGGCTTCCT	.	PASS	Atlas-SNP
DCAF6	55827	hgsc.bcm.edu	37	1	168014204	168014204	+	Missense_Mutation	SNP	T	T	A	rs41271647	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	502	199	399	0	0.396414	0	T|0.933;A|0.067	0.067	strong	.	DCAF6	99	.	NM_001198956	exon16	c.T1997A	p.L666H	TCAATCTTGATCG	.	PASS	Atlas-SNP
TOR1AIP1	26092	hgsc.bcm.edu	37	1	179858444	179858444	+	Splice_Site	SNP	G	G	A	rs2245425	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	79	70	0	1	0	G|0.377;A|0.623	0.623	strong	.	TOR1AIP1	58	.	NM_001267578	exon3	c.554-1G>A	.	ATATTAGCAGTGA	.	PASS	Atlas-SNP
SOX12	6666	hgsc.bcm.edu	37	20	306733	306733	+	Silent	SNP	G	G	A	rs73071018	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	89	147	0	0.566879	0	G|0.985;A|0.015	0.015	strong	SOX12,NS,lymphoid_neoplasm,0,1	SOX12	8	1	NM_006943	exon1	c.G165A	p.R55R	CGAACGGCGGAAG	.	PASS	Atlas-SNP
FLT4	2324	hgsc.bcm.edu	37	5	180030313	180030313	+	Missense_Mutation	SNP	C	C	A	rs307821	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	49	129	0	0.408333	0	C|0.922;A|0.078	0.078	strong	.	FLT4	356	.	NM_182925	exon30	c.G3971T	p.R1324L	GCCCCCCGCTCAG	.	PASS	Atlas-SNP
TRAIP	10293	hgsc.bcm.edu	37	3	49866584	49866584	+	Silent	SNP	T	T	G	rs35129566	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	111	195	0	0.536232	0	T|0.809;G|0.191	0.191	strong	.	TRAIP	47	.	NM_005879	exon15	c.A1362C	p.T454T	AGGCACTGTCTTC	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	31789582	31789582	+	Missense_Mutation	SNP	T	T	C	rs2290532	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	39	74	0	0.419355	0	C|0.372;N|0.000	0.372	strong	.	OSBPL10	160	.	NM_017784	exon5	c.A760G	p.N254D	CAAGGTTCTTCTG	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	31712393	31712393	+	Silent	SNP	C	C	T	rs3749405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	77	182	0	0.527397	0	C|0.470;T|0.530	0.530	strong	OSBPL10_ENST00000396556,extremity,malignant_melanoma,-1,6	OSBPL10	160	6	NM_017784	exon9	c.G1809A	p.P603P	CACCCACGGGATG	.	PASS	Atlas-SNP
LRRK2	120892	hgsc.bcm.edu	37	12	40742254	40742254	+	Silent	SNP	G	G	A	rs10878405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	97	156	0	1	0	G|0.735;A|0.265	0.265	strong	.	LRRK2	763	.	NM_198578	exon43	c.G6324A	p.E2108E	GGTTGAGAAATTA	.	PASS	Atlas-SNP
SLC19A1	6573	hgsc.bcm.edu	37	21	46957794	46957794	+	Missense_Mutation	SNP	T	T	C	rs1051266	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	28	15	0	1	0	T|0.518;C|0.482	0.482	strong	.	SLC19A1	53	.	NM_001205206	exon2	c.A80G	p.H27R	ACGAGGTGCCGCC	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155241735	155241735	+	Missense_Mutation	SNP	C	C	T	rs79535970	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	156	171	0	1	0	C|0.959;T|0.041	0.041	strong	.	DCHS2	594	.	NM_017639	exon14	c.G3451A	p.A1151T	TTTGTGCTGTCAG	.	PASS	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	37	21	43557698	43557698	+	Missense_Mutation	SNP	A	A	C	rs3819142	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	115	112	0	1	0	A|0.810;C|0.190	0.190	strong	.	UMODL1	186	.	NM_173568	exon21	c.A4309C	p.N1437H	CAGTCCAACAACT	.	PASS	Atlas-SNP
TROAP	10024	hgsc.bcm.edu	37	12	49723963	49723963	+	Silent	SNP	A	A	G	rs4243545	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	134	294	1	0.507576	0.00340136	A|0.789;G|0.211	0.211	strong	TROAP,NS,carcinoma,0,1	TROAP	80	1	NM_005480	exon13	c.A1335G	p.E445E	ACAGGAAGTAGAG	.	PASS	Atlas-SNP
CEP104	9731	hgsc.bcm.edu	37	1	3753136	3753136	+	Missense_Mutation	SNP	A	A	T	rs2275824	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	44	73	0	0.578947	0	A|0.664;T|0.336	0.336	strong	.	CEP104	79	.	NM_014704	exon10	c.T1240A	p.L414I	CCCCTAACATGCC	.	PASS	Atlas-SNP
NUCB2	4925	hgsc.bcm.edu	37	11	17351683	17351683	+	Missense_Mutation	SNP	C	C	G	rs757081	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	22	57	0	0.431373	0	C|0.738;G|0.262	0.262	strong	.	NUCB2	31	.	NM_005013	exon12	c.C1012G	p.Q338E	TTAGATCAGCAAC	.	PASS	Atlas-SNP
AZGP1	563	hgsc.bcm.edu	37	7	99569394	99569394	+	Silent	SNP	G	G	A	rs17295356	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	69	146	0	0.489362	0	G|0.657;A|0.343	0.343	strong	.	AZGP1	41	.	NM_001185	exon2	c.C312T	p.I104I	CTCCACGATGTCT	.	PASS	Atlas-SNP
EIF2S3	1968	hgsc.bcm.edu	37	X	24075862	24075862	+	Missense_Mutation	SNP	A	A	G	rs16997659	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	69	113	0	1	0	A|0.888;0|0.013	.	strong	.	EIF2S3	31	.	NM_001415	exon4	c.A374G	p.K125R	ACTTCAAATTAGT	.	PASS	Atlas-SNP
ITGA3	3675	hgsc.bcm.edu	37	17	48158685	48158685	+	Silent	SNP	C	C	T	rs55893410	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	36	94	0	0.418605	0	C|0.929;T|0.071	0.071	strong	.	ITGA3	128	.	NM_005501	exon23	c.C2832T	p.D944D	CAGAGACTTTGAC	.	PASS	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167035332	167035332	+	Missense_Mutation	SNP	T	T	C	rs34465133	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	78	189	0	0.356164	0	T|0.987;C|0.013	0.013	strong	.	ZBBX	299	.	NM_024687	exon13	c.A1037G	p.H346R	GTTTCATGTGGAT	.	PASS	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	37	3	122419210	122419210	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	16	74	0	0.222222	0	.	.	none	.	PARP14	242	.	NM_017554	exon6	c.T1809C	p.V603V	TGAAGTTGAGAAC	.	PASS	Atlas-SNP
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45971109	45971109	+	Missense_Mutation	SNP	G	G	A	rs77233671		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	27	154	0	0.230769	0	.	.	weak	KRTAP10-2,caecum,carcinoma,0,1	KRTAP10-2	21	1	NM_198693	exon1	c.C233T	p.S78L	CAGCACGAGGGCG	.	scavenged	Atlas-SNP
ATXN1L	342371	hgsc.bcm.edu	37	16	71884430	71884430	+	Missense_Mutation	SNP	C	C	G	rs199599582	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	43	99	0	0.401869	0	.	.	weak	.	ATXN1L	18	.	NM_001137675	exon3	c.C787G	p.L263V	TCTGCTCTGGAAG	.	PASS	Atlas-SNP
C12orf43	64897	hgsc.bcm.edu	37	12	121442214	121442214	+	Silent	SNP	G	G	A	rs3751150	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	70	179	0	0.469799	0	G|0.899;A|0.101	0.101	strong	.	C12orf43	30	.	NM_022895	exon6	c.C531T	p.I177I	GCTGTGGATGGCT	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54726299	54726299	+	Missense_Mutation	SNP	A	A	C	rs80077296	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	531	159	514	0	0.299435	0	C|1.000;|0.000	1.000	weak	.	LILRB3	67	.	NM_006864	exon3	c.T206G	p.L69W	CTGTCCAAGGGCT	.	PASS	Atlas-SNP
ASB1	51665	hgsc.bcm.edu	37	2	239353001	239353001	+	Silent	SNP	C	C	T	rs2290075	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	74	135	0	0.480519	0	C|0.937;T|0.063	0.063	strong	.	ASB1	25	.	NM_001040445	exon4	c.C513T	p.D171D	TGTTGACGTCAAC	.	PASS	Atlas-SNP
KLF3	51274	hgsc.bcm.edu	37	4	38696385	38696385	+	Silent	SNP	C	C	T	rs142916199	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	67	109	0	0.531746	0	C|0.999;T|0.001	0.001	strong	.	KLF3	40	.	NM_016531	exon5	c.C714T	p.I238I	GGTCATCGTGCAG	.	PASS	Atlas-SNP
TSKS	60385	hgsc.bcm.edu	37	19	50251422	50251422	+	Missense_Mutation	SNP	C	C	T	rs34701020	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	60	113	0	0.447761	0	C|0.971;T|0.029	0.029	strong	.	TSKS	97	.	NM_021733	exon4	c.G499A	p.E167K	AACACTCGCTCTG	.	PASS	Atlas-SNP
MED13	9969	hgsc.bcm.edu	37	17	60038404	60038404	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	52	102	0	0.509804	0	.	.	none	MED13,NS,carcinoma,-1,1	MED13	181	1	NM_005121	exon23	c.A5304G	p.P1768P	CTTCACTGGAGCC	.	PASS	Atlas-SNP
CENPN	55839	hgsc.bcm.edu	37	16	81056441	81056441	+	Missense_Mutation	SNP	T	T	G	rs3743503	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	36	79	0	0.413793	0	T|0.878;G|0.122	0.122	strong	.	CENPN	84	.	NM_018455	exon7	c.T613G	p.X205E	TGCAATTAGTGAA	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5399044	5399044	+	Silent	SNP	C	C	G	rs12531309	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	83	178	0	0.468927	0	C|0.729;G|0.271	0.271	strong	.	TNRC18	311	.	NM_001080495	exon15	c.G4818C	p.S1606S	GAAGTCCGACGAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	46	79	0	0.464646	0	G|0.892;A|0.108	0.108	strong	.	MVK	42	.	NM_000431	exon3	c.G155A	p.S52N	ACCTCAGCTTACC	.	PASS	Atlas-SNP
FOXM1	2305	hgsc.bcm.edu	37	12	2973615	2973615	+	Silent	SNP	T	T	C	rs2072360	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	41	68	0	0.414141	0	T|0.759;C|0.241	0.241	strong	.	FOXM1	62	.	NM_021953	exon8	c.A1137G	p.V379V	GATAGGTACCAGG	.	PASS	Atlas-SNP
MADD	8567	hgsc.bcm.edu	37	11	47298360	47298360	+	Silent	SNP	G	G	A	rs326214	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	141	120	0	0.979167	0	G|0.446;A|0.554	0.554	strong	MADD,colon,carcinoma,+1,1	MADD	172	1	NM_130474	exon5	c.G1041A	p.E347E	ACTGGAGTATATG	.	PASS	Atlas-SNP
OR8G2	26492	hgsc.bcm.edu	37	11	124095525	124095525	+	Missense_Mutation	SNP	T	T	C	rs56539989		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	96	225	0	0.48	0	.	.	weak	.	.	.	.	NM_001007249	exon1	c.T128C	p.L43P	TCCTCCTGTTCTT	.	PASS	Atlas-SNP
FNDC7	163479	hgsc.bcm.edu	37	1	109268441	109268441	+	Missense_Mutation	SNP	G	G	A	rs11582005	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	73	144	0	0.462025	0	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
SLC22A20	440044	hgsc.bcm.edu	37	11	64981587	64981587	+	Missense_Mutation	SNP	G	G	A	rs11605632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	15	56	0	0.535714	0	G|0.621;A|0.379	0.379	strong	SLC22A20,NS,carcinoma,0,2	SLC22A20	36	2	NM_001004326	exon1	c.G244A	p.E82K	GCCCCTGAGCCCT	.	PASS	Atlas-SNP
SGSM1	129049	hgsc.bcm.edu	37	22	25251027	25251027	+	Silent	SNP	T	T	C	rs201064977	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	115	249	0	0.424354	0	T|0.998;C|0.002	0.002	strong	.	SGSM1	150	.	NM_001098497	exon6	c.T520C	p.L174L	TCTTTGTTGGGTA	.	PASS	Atlas-SNP
SERPINA9	327657	hgsc.bcm.edu	37	14	94933709	94933709	+	Silent	SNP	C	C	T	rs6575433	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	23	57	0	0.370968	0	C|0.636;T|0.364	0.364	strong	.	SERPINA9	105	.	NM_175739	exon3	c.G693A	p.E231E	GGGCTTCTCCCAC	.	PASS	Atlas-SNP
TMPRSS11B	132724	hgsc.bcm.edu	37	4	69095197	69095197	+	Missense_Mutation	SNP	T	T	C	rs12331141	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	121	131	0	0.98374	0	T|0.292;C|0.708	0.708	strong	.	TMPRSS11B	66	.	NM_182502	exon8	c.A724G	p.I242V	CTACAATTCCAAA	.	PASS	Atlas-SNP
INTU	27152	hgsc.bcm.edu	37	4	128584580	128584580	+	Silent	SNP	G	G	A	rs4833380	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	153	174	1	1	0.00574713	G|0.390;A|0.610	0.610	strong	.	INTU	92	.	NM_015693	exon4	c.G813A	p.T271T	GGAGACGTCCCAT	.	PASS	Atlas-SNP
ENG	2022	hgsc.bcm.edu	37	9	130605385	130605385	+	Silent	SNP	C	C	T	rs11545664	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	19	45	0	0.487179	0	C|0.852;T|0.148	0.148	strong	.	ENG	44	.	NM_001114753	exon2	c.G207A	p.L69L	GAACTCCAGGAAG	.	PASS	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4458515	4458515	+	Missense_Mutation	SNP	G	G	T	rs117128211	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	34	80	0	0.557377	0	G|0.983;T|0.017	0.017	strong	.	MYBBP1A	69	.	NM_014520	exon1	c.C105A	p.F35L	GTCCAAGAACTCG	.	PASS	Atlas-SNP
USP6	9098	hgsc.bcm.edu	37	17	5058808	5058808	+	Missense_Mutation	SNP	G	G	A	rs9899177	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	259	258	252	1	0.996139	0.00396825	G|0.541;A|0.459	0.459	strong	USP6_ENST00000250066,NS,carcinoma,-1,1	USP6	213	1	NM_004505	exon23	c.G2735A	p.R912Q	ATACCCGGAAGAA	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88496008	88496008	+	Silent	SNP	T	T	C	rs12918876	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	19	130	0	0.271429	0	T|0.388;C|0.612	0.612	strong	.	ZNF469	121	.	NM_001127464	exon1	c.T2130C	p.P710P	GCCGCCTCCGTAC	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32610008	32610008	+	Silent	SNP	C	C	T	rs2308890	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	147	130	0	0.713592	0	C|0.717;T|0.283	0.283	strong	.	HLA-DQA1	52	.	NM_002122	exon3	c.C591T	p.D197D	CCTGGACCAGCCT	.	PASS	Atlas-SNP
ZNF280A	129025	hgsc.bcm.edu	37	22	22868497	22868497	+	Missense_Mutation	SNP	G	G	C	rs361762	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	63	111	0	0.45	0	G|0.455;C|0.545	0.545	strong	.	ZNF280A	67	.	NM_080740	exon2	c.C1458G	p.F486L	ACGAGGGAACCCT	.	PASS	Atlas-SNP
ZNF559	84527	hgsc.bcm.edu	37	19	9449888	9449888	+	Missense_Mutation	SNP	A	A	G	rs77267061	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	98	231	1	0.471154	0.004329	A|0.948;G|0.052	0.052	strong	.	ZNF559	77	.	NM_001202408	exon4	c.A245G	p.D82G	TTGAGGATGTGGC	.	PASS	Atlas-SNP
ZNF202	7753	hgsc.bcm.edu	37	11	123598941	123598941	+	Silent	SNP	T	T	C	rs2282644	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	56	134	0	0.411765	0	T|0.784;C|0.216	0.216	strong	.	ZNF202	72	.	NM_003455	exon7	c.A732G	p.V244V	AAAGCATACGGCC	.	PASS	Atlas-SNP
CCM2	83605	hgsc.bcm.edu	37	7	45104131	45104131	+	Missense_Mutation	SNP	G	G	A	rs11552377	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	22	59	0	0.536585	0	G|0.879;A|0.121	0.121	strong	.	CCM2	42	.	NM_001029835	exon4	c.G421A	p.V141I	TACAACGTCAAGC	.	PASS	Atlas-SNP
PCDHGA2	56113	hgsc.bcm.edu	37	5	140720516	140720516	+	Missense_Mutation	SNP	C	C	G	rs61742830	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	86	224	0	0.661538	0	C|0.686;G|0.314	0.314	strong	.	PCDHGA2	205	.	NM_018915	exon1	c.C1978G	p.L660V	GTCACGCTCACCG	.	PASS	Atlas-SNP
DNAJB13	374407	hgsc.bcm.edu	37	11	73681090	73681090	+	Silent	SNP	C	C	T	rs2306819	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	62	125	0	0.508197	0	C|0.731;T|0.269	0.269	strong	.	DNAJB13	28	.	NM_153614	exon8	c.C882T	p.F294F	CTTCTTCGACATC	.	PASS	Atlas-SNP
SIGIRR	59307	hgsc.bcm.edu	37	11	407954	407954	+	Missense_Mutation	SNP	G	G	C	rs111819059	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	26	110	0	0.433333	0	G|0.995;C|0.005	0.005	strong	.	SIGIRR	22	.	NM_001135053	exon5	c.C344G	p.P115R	CTTGTAGGGCCTG	.	PASS	Atlas-SNP
DYTN	391475	hgsc.bcm.edu	37	2	207572133	207572133	+	Silent	SNP	A	A	C	rs67248530	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	97	231	0	0.480198	0	A|0.951;C|0.049	0.049	strong	.	DYTN	168	.	NM_001093730	exon3	c.T189G	p.S63S	TGCCTGAGAAAGT	.	PASS	Atlas-SNP
OR10H5	284433	hgsc.bcm.edu	37	19	15905251	15905251	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	282	9	295	0	0.0319149	0	.	.	none	OR10H5,colon,carcinoma,+1,1	OR10H5	49	1	NM_001004466	exon1	c.T393C	p.R131R	CCTGCGTTACAAC	.	scavenged	Atlas-SNP
SCARA5	286133	hgsc.bcm.edu	37	8	27767231	27767231	+	Missense_Mutation	SNP	C	C	G	rs17058207	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	50	119	0	0.4	0	C|0.835;G|0.165	0.165	strong	.	SCARA5	53	.	NM_173833	exon5	c.G946C	p.D316H	CTTCATCCCCCTG	.	PASS	Atlas-SNP
HCFC1	3054	hgsc.bcm.edu	37	X	153215839	153215839	+	Silent	SNP	G	G	A	rs3027875	bycluster;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	83	116	0	1	0	G|0.712;A|0.288	0.288	strong	.	HCFC1	284	.	NM_005334	exon24	c.C5859T	p.C1953C	GGGCCCGCAGTAC	.	PASS	Atlas-SNP
URGCP	55665	hgsc.bcm.edu	37	7	43916491	43916491	+	Silent	SNP	G	G	A	rs2232109	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	31	85	0	0.407895	0	G|0.918;A|0.082	0.082	strong	.	URGCP	170	.	NM_001077663	exon6	c.C2571T	p.D857D	GAAGCCGTCGCCC	.	PASS	Atlas-SNP
TCEB3B	51224	hgsc.bcm.edu	37	18	44560123	44560123	+	Missense_Mutation	SNP	C	C	T	rs72921305	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	59	155	0	0.412587	0	C|0.988;T|0.012	0.012	strong	.	TCEB3B	141	.	NM_016427	exon1	c.G1513A	p.G505R	TGCGTCCAGGGAA	.	PASS	Atlas-SNP
FAM86A	196483	hgsc.bcm.edu	37	16	5139186	5139186	+	Missense_Mutation	SNP	G	G	C	rs12928528	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	24	46	1	0.521739	0.0217391	G|0.559;C|0.441	0.441	strong	FAM86A,NS,carcinoma,0,1	FAM86A	32	1	NM_201400	exon7	c.C814G	p.H272D	GCTGGTGCTCCCG	.	scavenged	Atlas-SNP
IL17RB	55540	hgsc.bcm.edu	37	3	53883722	53883722	+	Silent	SNP	C	C	G	rs1025689	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	70	108	0	0.522388	0	C|0.534;G|0.466	0.466	strong	.	IL17RB	27	.	NM_018725	exon3	c.C126G	p.P42P	AATCCCCGGAGAC	.	PASS	Atlas-SNP
CRTAC1	55118	hgsc.bcm.edu	37	10	99696003	99696003	+	Silent	SNP	G	G	A	rs35027739	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	55	141	0	0.436508	0	G|0.861;A|0.139	0.139	strong	.	CRTAC1	86	.	NM_001206528	exon3	c.C345T	p.I115I	GACCCCGATGGCG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9058624	9058624	+	Missense_Mutation	SNP	G	G	A	rs11878666	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	133	226	1	0.465035	0.00442478	G|0.785;A|0.215	0.215	strong	.	MUC16	4315	.	NM_024690	exon3	c.C28822T	p.P9608S	CAGAGGGCATCTT	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1499927	1499927	+	Missense_Mutation	SNP	A	A	C	rs732609	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	33	82	0	0.428571	0	A|0.520;C|0.480	0.480	strong	.	TPO	224	.	NM_001206744	exon12	c.A2173C	p.T725P	AGCATCACTGGCA	.	PASS	Atlas-SNP
CD6	923	hgsc.bcm.edu	37	11	60785463	60785463	+	Silent	SNP	C	C	T	rs12417503	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	22	25	0	0.55	0	C|0.875;T|0.125	0.125	strong	CD6_ENST00000313421,NS,carcinoma,+2,2	CD6	122	2	NM_006725	exon11	c.C1815T	p.A605A	GCTGGCCGGCACC	.	PASS	Atlas-SNP
ARID3C	138715	hgsc.bcm.edu	37	9	34627764	34627764	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	2	165	0	0.0105263	0	.	.	none	ARID3C,right_upper_lobe,carcinoma,+1,2	ARID3C	33	2	NM_001017363	exon1	c.C248T	p.P83L	GAGCTGGGGCCCT	.	scavenged	Atlas-SNP
LMF2	91289	hgsc.bcm.edu	37	22	50945256	50945256	+	Silent	SNP	A	A	G	rs131824	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	68	119	0	0.612613	0	A|0.593;G|0.407	0.407	strong	.	LMF2	40	.	NM_033200	exon2	c.T303C	p.P101P	GATGACAGGGTGG	.	PASS	Atlas-SNP
OR6T1	219874	hgsc.bcm.edu	37	11	123814489	123814489	+	Silent	SNP	A	A	G	rs4936859	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	46	86	0	0.489362	0	A|0.746;G|0.254	0.254	strong	.	OR6T1	85	.	NM_001005187	exon1	c.T57C	p.S19S	GTGGCTACTGGGG	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32134815	32134815	+	Missense_Mutation	SNP	G	G	A	rs16919122	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	50	121	0	0.390625	0	G|0.878;A|0.122	0.122	strong	.	.	.	.	NM_018169	exon4	c.G926A	p.R309Q	AGAGTCGAGAAAT	.	PASS	Atlas-SNP
MTMR3	8897	hgsc.bcm.edu	37	22	30403996	30403996	+	Silent	SNP	C	C	T	rs2074204	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	104	204	0	0.479263	0	C|0.678;T|0.322	0.322	strong	.	MTMR3	106	.	NM_021090	exon11	c.C984T	p.A328A	CCGAGCCAAAGGA	.	PASS	Atlas-SNP
TFEC	22797	hgsc.bcm.edu	37	7	115624478	115624478	+	Missense_Mutation	SNP	C	C	G	rs35695387	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	117	216	0	0.46988	0	C|0.982;G|0.018	0.018	strong	TFEC,colon,carcinoma,0,1	TFEC	51	1	NM_001018058	exon2	c.G18C	p.Q6H	GATGATCTGATGA	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88793155	88793155	+	Missense_Mutation	SNP	C	C	T	rs185326407	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	18	42	0	0.439024	0	C|0.997;T|0.003	0.003	strong	.	PIEZO1	79	.	NM_001142864	exon25	c.G3667A	p.V1223I	CGGTGACGTTGTA	.	PASS	Atlas-SNP
C1orf87	127795	hgsc.bcm.edu	37	1	60506762	60506762	+	Silent	SNP	G	G	A	rs74843231	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	222	100	223	0	0.45045	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
PRB2	653247	hgsc.bcm.edu	37	12	11546439	11546439	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	484	9	419	7	0.018595	0.0167064	.	.	none	PRB2_ENST00000389362,rectum,carcinoma,-1,2	PRB2	168	2	NM_006248	exon3	c.C573T	p.P191P	ACCTTGGGGCTGG	.	scavenged	Atlas-SNP
TRAK2	66008	hgsc.bcm.edu	37	2	202252478	202252478	+	Silent	SNP	A	A	G	rs35620793	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	96	212	0	0.450704	0	A|0.959;G|0.041	0.041	strong	.	TRAK2	62	.	NM_015049	exon13	c.T1644C	p.S548S	AAGGCAACTGGCA	.	PASS	Atlas-SNP
BTBD16	118663	hgsc.bcm.edu	37	10	124096041	124096041	+	Silent	SNP	T	T	C	rs1129973	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	55	99	0	0.486726	0	T|0.621;C|0.379	0.379	strong	BTBD16,NS,lymphoid_neoplasm,0,1	BTBD16	44	1	NM_144587	exon15	c.T1296C	p.S432S	TCCCTCTGCGGTC	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128388862	128388862	+	Missense_Mutation	SNP	G	G	C	rs13025959	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	158	165	0	0.993711	0	G|0.845;C|0.155	0.155	strong	.	MYO7B	359	.	NM_001080527	exon36	c.G4941C	p.E1647D	CTGCGAGCCGCTG	.	PASS	Atlas-SNP
BGN	633	hgsc.bcm.edu	37	X	152771509	152771509	+	Silent	SNP	C	C	T	rs1126499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	49	78	0	1	0	C|0.658;T|0.342	0.342	strong	.	BGN	44	.	NM_001711	exon4	c.C540T	p.S180S	GTTCAGCGGGCTC	.	PASS	Atlas-SNP
OR10G9	219870	hgsc.bcm.edu	37	11	123893728	123893728	+	Missense_Mutation	SNP	G	G	C	rs200621698	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	417	43	267	1	0.103118	0.00374532	G|0.960;C|0.039	0.039	strong	OR10G9,NS,carcinoma,+2,1	OR10G9	80	1	NM_001001953	exon1	c.G9C	p.K3N	GTCCAAGACCAGC	.	scavenged	Atlas-SNP
ITGA10	8515	hgsc.bcm.edu	37	1	145536082	145536082	+	Missense_Mutation	SNP	G	G	A	rs2274616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	146	196	0	0.565891	0	G|0.869;A|0.131	0.131	strong	ITGA10,NS,carcinoma,-1,1	ITGA10	131	1	NM_003637	exon17	c.G2174A	p.R725Q	CCCCTCGGAGGCT	.	PASS	Atlas-SNP
MLC1	23209	hgsc.bcm.edu	37	22	50515270	50515270	+	Silent	SNP	T	T	C	rs6010164	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	41	71	0	0.640625	0	T|0.887;C|0.113	0.113	strong	.	MLC1	48	.	NM_015166	exon7	c.A597G	p.S199S	TCTTACTGAGTAA	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179638238	179638238	+	Silent	SNP	G	G	A	rs2291306	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	40	95	0	0.421053	0	G|0.916;A|0.084	0.084	strong	.	TTN	18412	.	NM_001267550	exon32	c.C7545T	p.Y2515Y	CAGCTTGTAAGGT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9046876	9046876	+	Missense_Mutation	SNP	G	G	T	rs4804378	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	60	146	0	0.46875	0	G|0.807;T|0.193	0.193	strong	.	MUC16	4315	.	NM_024690	exon5	c.C34755A	p.S11585R	CGTTGTGCTGGTT	.	PASS	Atlas-SNP
TOR3A	64222	hgsc.bcm.edu	37	1	179055020	179055020	+	Silent	SNP	C	C	T	rs2296376	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	62	102	0	0.563636	0	C|0.872;T|0.128	0.128	strong	.	TOR3A	28	.	NM_022371	exon3	c.C631T	p.L211L	GTGGACCTGTACA	.	PASS	Atlas-SNP
CARD8	22900	hgsc.bcm.edu	37	19	48722180	48722180	+	Silent	SNP	C	C	T	rs10500299	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	86	179	0	0.483146	0	C|0.758;T|0.242	0.242	strong	.	CARD8	53	.	NM_001184900	exon9	c.G1251A	p.E417E	AGTAATCTCAAGT	.	PASS	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	37	8	52733050	52733050	+	Missense_Mutation	SNP	T	T	A	rs12335014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	292	252	352	0	0.863014	0	T|0.570;A|0.430	0.430	strong	.	PCMTD1	73	.	NM_052937	exon6	c.A935T	p.N312I	TCTTTGTTATCCT	.	PASS	Atlas-SNP
PER1	5187	hgsc.bcm.edu	37	17	8048169	8048169	+	Silent	SNP	T	T	C	rs2253820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	46	122	0	0.479167	0	T|0.361;C|0.639	0.639	strong	.	PER1	104	.	NM_002616	exon18	c.A2361G	p.T787T	CTTCTGTGTGTGC	.	PASS	Atlas-SNP
WNT16	51384	hgsc.bcm.edu	37	7	120972016	120972016	+	Missense_Mutation	SNP	C	C	A	rs74389152	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	40	93	0	0.5	0	C|0.998;A|0.002	0.002	strong	.	WNT16	97	.	NM_057168	exon3	c.C631A	p.Q211K	GGAAGGCAGGTAT	.	PASS	Atlas-SNP
OR2T3	343173	hgsc.bcm.edu	37	1	248637417	248637417	+	Missense_Mutation	SNP	C	C	T	rs74711605	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	933	256	946	0	0.274384	0	C|0.889;T|0.111	0.111	strong	.	OR2T3	79	.	NM_001005495	exon1	c.C766T	p.L256F	CTGCTGCTCTTCG	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1264965	1264965	+	Silent	SNP	G	G	A	rs4963051	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	422	236	551	1	0.559242	0.00181488	G|0.873;A|0.127	0.127	strong	.	MUC5B	473	.	NM_002458	exon31	c.G6855A	p.T2285T	AGCCACGGCCACA	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79284694	79284694	+	Missense_Mutation	SNP	C	C	T	rs6835769	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	31	78	0	0.397436	0	C|0.660;T|0.340	0.340	strong	.	FRAS1	779	.	NM_001166133	exon21	c.C2450T	p.A817V	ACTGTGCAGCTGA	.	PASS	Atlas-SNP
UGT2B28	54490	hgsc.bcm.edu	37	4	70152481	70152481	+	Silent	SNP	A	A	G	rs141618560		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	5	202	2	0.045045	0.00990099	A|1.000;G|0.000	0.000	weak	UGT2B28,NS,carcinoma,0,4	UGT2B28	101	4	NM_053039	exon3	c.A882G	p.E294E	GGAGGAATTTGTA	.	scavenged	Atlas-SNP
IQCK	124152	hgsc.bcm.edu	37	16	19775403	19775403	+	Missense_Mutation	SNP	A	A	C	rs149444739	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	66	157	0	0.532258	0	A|0.996;C|0.004	0.004	strong	.	IQCK	35	.	NM_153208	exon7	c.A574C	p.I192L	TTCTCCATTCCAT	.	PASS	Atlas-SNP
NUP153	9972	hgsc.bcm.edu	37	6	17637404	17637404	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	3	158	0	0.014218	0	.	.	none	NUP153,NS,carcinoma,0,1	NUP153	116	1	NM_005124	exon16	c.C2444T	p.S815F	ATACAGGACACAC	.	scavenged	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	37	6	38746176	38746176	+	Missense_Mutation	SNP	G	G	A	rs61748601	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	38	127	0	0.304	0	G|0.880;A|0.120	0.120	strong	.	DNAH8	1239	.	NM_001206927	exon14	c.G1975A	p.A659T	ATACAGGCATTTA	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	71054116	71054116	+	Missense_Mutation	SNP	T	T	C	rs183427172	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	36	69	0	0.571429	0	T|0.998;C|0.002	0.002	strong	.	HYDIN	788	.	NM_001270974	exon22	c.A3291G	p.I1097M	CTCACATATAAAG	.	PASS	Atlas-SNP
MICB	4277	hgsc.bcm.edu	37	6	31473561	31473561	+	Missense_Mutation	SNP	A	A	G	rs1065075	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	65	133	0	0.419355	0	A|0.712;G|0.288	0.288	strong	.	MICB	26	.	NM_005931	exon2	c.A238G	p.K80E	GGAGCTAAGACCT	.	PASS	Atlas-SNP
GSTP1	2950	hgsc.bcm.edu	37	11	67352689	67352689	+	Missense_Mutation	SNP	A	A	G	rs1695	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	63	115	0	0.5	0	A|0.689;G|0.311	0.311	strong	.	GSTP1	21	.	NM_000852	exon5	c.A313G	p.I105V	AAATACATCTCCC	.	PASS	Atlas-SNP
SNAPC4	6621	hgsc.bcm.edu	37	9	139270901	139270901	+	Silent	SNP	G	G	A	rs61745672	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	68	123	0	0.492754	0	G|0.934;A|0.066	0.066	strong	.	SNAPC4	82	.	NM_003086	exon22	c.C4317T	p.S1439S	GCAGGAGGAAGCA	.	PASS	Atlas-SNP
KIFAP3	22920	hgsc.bcm.edu	37	1	169951997	169951997	+	Silent	SNP	C	C	T	rs33943686	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	37	94	0	0.362745	0	C|0.728;T|0.272	0.272	strong	.	KIFAP3	102	.	NM_014970	exon14	c.G1518A	p.G506G	AAGGTCCCCAACA	.	PASS	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	37	6	17834198	17834198	+	Silent	SNP	T	T	G	rs4716189	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	66	108	0	0.468085	0	T|0.583;G|0.417	0.417	strong	.	KIF13A	276	.	NM_001105567	exon12	c.A1260C	p.I420I	CTGTGCTATCTCT	.	PASS	Atlas-SNP
PABPC4L	132430	hgsc.bcm.edu	37	4	135121601	135121601	+	Missense_Mutation	SNP	C	C	T	rs10009368	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	214	200	0	0.990741	0	C|0.348;T|0.652	0.652	strong	.	PABPC4L	60	.	NM_001114734	exon2	c.G748A	p.V250I	TGTAAACATTGGT	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42145936	42145936	+	Missense_Mutation	SNP	G	G	C	rs1197660	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	29	33	0	0.527273	0	G|0.736;C|0.264	0.264	strong	.	SPTBN5	171	.	NM_016642	exon58	c.C9719G	p.A3240G	CGGCAGGCCTCCG	.	PASS	Atlas-SNP
EVC2	132884	hgsc.bcm.edu	37	4	5642274	5642274	+	Silent	SNP	T	T	C	rs13131655	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	102	232	0	0.476636	0	T|0.716;C|0.284	0.284	strong	.	EVC2	202	.	NM_147127	exon10	c.A1437G	p.E479E	TTCTGCTTCCTCC	.	PASS	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	37	14	20847202	20847202	+	Silent	SNP	A	A	G	rs938887	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	77	148	0	0.52027	0	A|0.719;C|0.001	.	strong	.	TEP1	224	.	NM_007110	exon36	c.T5190C	p.D1730D	GAGTGTATCATCG	.	PASS	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70924542	70924542	+	Missense_Mutation	SNP	G	G	C	rs79958245	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	71	182	0	0.279528	0	G|0.992;C|0.008	0.008	strong	.	ADAM21	181	.	NM_003813	exon2	c.G326C	p.C109S	ATGACTGTTACTA	.	PASS	Atlas-SNP
COL24A1	255631	hgsc.bcm.edu	37	1	86557967	86557967	+	Missense_Mutation	SNP	G	G	A	rs11161732	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	75	174	0	0.471698	0	G|0.616;A|0.384	0.384	strong	.	COL24A1	202	.	NM_152890	exon6	c.C1636T	p.P546S	GAACAGGTTGACC	.	PASS	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70924432	70924432	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	14	315	0	0.0528302	0	.	.	none	ADAM21_ENST00000267499,colon,carcinoma,0,2	ADAM21	181	2	NM_003813	exon2	c.C216T	p.H72H	GAAACACGTTGTT	.	scavenged	Atlas-SNP
ABI3BP	25890	hgsc.bcm.edu	37	3	100617680	100617680	+	Silent	SNP	C	C	T	rs2245370	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	97	80	0	1	0	C|0.280;T|0.720	0.720	strong	.	ABI3BP	305	.	NM_015429	exon4	c.G408A	p.S136S	GAAGACCGAGCTC	.	PASS	Atlas-SNP
GPR111	222611	hgsc.bcm.edu	37	6	47649574	47649574	+	Missense_Mutation	SNP	A	A	G	rs10807372	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	52	102	0	0.547368	0	A|0.519;G|0.481	0.481	strong	.	GPR111	123	.	NM_153839	exon7	c.A1075G	p.K359E	CCAAGCAAATTGT	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204747	56204747	+	Missense_Mutation	SNP	G	G	A	rs3826593	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	116	125	0	1	0	G|0.175;A|0.825	0.825	strong	.	ALPK2	487	.	NM_052947	exon5	c.C2672T	p.T891I	GTACTGGTAAAAA	.	PASS	Atlas-SNP
ZAR1	326340	hgsc.bcm.edu	37	4	48493237	48493237	+	Missense_Mutation	SNP	G	G	A	rs79858408	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	4	4	5	0	1	0	G|0.542;A|0.458	0.458	strong	.	ZAR1	15	.	NM_175619	exon1	c.G929A	p.S310N	CACGGAGCCCGGA	.	PASS	Atlas-SNP
POR	5447	hgsc.bcm.edu	37	7	75609677	75609677	+	Silent	SNP	A	A	G	rs1135612	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	44	57	0	0.517647	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
CCND1	595	hgsc.bcm.edu	37	11	69462910	69462910	+	Silent	SNP	G	G	A	rs9344	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	41	68	0	0.554054	0	G|0.602;A|0.398	0.398	strong	CCND1_ENST00000227507,NS,adenoma,0,1	CCND1	107	1	NM_053056	exon4	c.G723A	p.P241P	TGACCCGGTAAGT	.	PASS	Atlas-SNP
LASP1	3927	hgsc.bcm.edu	37	17	37074932	37074932	+	Silent	SNP	C	C	T	rs3744075	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	38	88	0	0.372549	0	C|0.944;T|0.056	0.056	strong	.	LASP1	24	.	NM_006148	exon7	c.C687T	p.I229I	CACCATCGTCAAC	.	PASS	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	37	18	44126909	44126909	+	Missense_Mutation	SNP	T	T	C	rs1893566	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	105	134	1	0.990566	0.00746269	T|0.306;C|0.694	0.694	strong	.	LOXHD1	367	.	NM_144612	exon22	c.A3463G	p.R1155G	CTCCCCTACCCTC	.	PASS	Atlas-SNP
USP19	10869	hgsc.bcm.edu	37	3	49156473	49156473	+	Missense_Mutation	SNP	C	C	G	rs11552724	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	67	163	0	0.39645	0	C|0.905;G|0.095	0.095	strong	.	USP19	158	.	NM_001199160	exon2	c.G106C	p.D36H	CTCCATCCTTGCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	107	220	0	0.981651	0	A|0.790;0|0.012	.	strong	.	GUCY2F	178	.	NM_001522	exon3	c.T851C	p.L284P	TAGAGCAGGGCAT	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103391634	103391634	+	Missense_Mutation	SNP	C	C	T	rs7322112	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	52	100	0	0.416	0	C|0.324;T|0.676	0.676	strong	.	.	.	.	NM_001146197	exon4	c.G11413A	p.V3805I	CCATTACATCTTT	.	PASS	Atlas-SNP
TMC5	79838	hgsc.bcm.edu	37	16	19481020	19481020	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	28	104	0	0.193103	0	.	.	none	TMC5_ENST00000396229,NS,malignant_melanoma,0,2	TMC5	169	2	NM_001105249	exon10	c.G1655A	p.R552Q	ATTTCCGGAACAA	.	PASS	Atlas-SNP
GSTZ1	2954	hgsc.bcm.edu	37	14	77793237	77793237	+	Missense_Mutation	SNP	G	G	A	rs7972	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	27	64	0	0.409091	0	G|0.949;A|0.051	0.051	strong	.	GSTZ1	35	.	NM_145871	exon3	c.G124A	p.G42R	AAGGATGGGGGCC	.	PASS	Atlas-SNP
CYP2C18	1562	hgsc.bcm.edu	37	10	96493058	96493058	+	Missense_Mutation	SNP	C	C	T	rs1126545	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	84	204	0	0.422111	0	C|0.827;T|0.173	0.173	strong	.	CYP2C18	79	.	NM_000772	exon8	c.C1154T	p.T385M	AGGGCACGACCAT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511780	195511780	+	Missense_Mutation	SNP	G	G	A	rs391928	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	387	117	190	1	0.302326	0.00526316	G|0.789;A|0.211	0.211	strong	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C6671T	p.P2224L	AGAAGAGGGATGG	.	scavenged	Atlas-SNP
IVL	3713	hgsc.bcm.edu	37	1	152882952	152882952	+	Missense_Mutation	SNP	G	G	C	rs11807064	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	17	104	0	0.10119	0	G|0.995;C|0.005	0.005	strong	IVL,caecum,carcinoma,0,3	IVL	100	3	NM_005547	exon2	c.G679C	p.E227Q	CTCCCAGAGCAGC	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97883094	97883094	+	Missense_Mutation	SNP	T	T	G	rs62156176	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	948	318	813	1	0.335443	0.00123001	T|0.905;G|0.095	0.095	strong	ANKRD36_ENST00000420699,NS,carcinoma,0,4	ANKRD36	170	4	NM_001164315	exon64	c.T3838G	p.W1280G	GGCGGTTGGAAAT	.	PASS	Atlas-SNP
C9orf123	90871	hgsc.bcm.edu	37	9	7799606	7799606	+	Silent	SNP	C	C	A	rs14059	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	28	75	0	0.509091	0	C|0.639;A|0.361	0.361	strong	.	C9orf123	7	.	NM_033428	exon1	c.G129T	p.L43L	CTTCAACAGGCGG	.	PASS	Atlas-SNP
PDIA3	2923	hgsc.bcm.edu	37	15	44061802	44061802	+	Silent	SNP	C	C	T	rs1053492	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	161	160	0	0.952663	0	C|0.466;T|0.534	0.534	strong	PDIA3,bladder,carcinoma,+1,1	PDIA3	40	1	NM_005313	exon10	c.C1224T	p.H408H	TGGTCACTGTAAG	.	PASS	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	37	2	186678633	186678633	+	Missense_Mutation	SNP	C	C	T	rs17826666	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224	120	199	0	0.535714	0	C|0.944;T|0.056	0.056	strong	.	FSIP2	251	.	NM_173651	exon18	c.C20456T	p.T6819I	AAAGTACTGAAGC	.	PASS	Atlas-SNP
GPR111	222611	hgsc.bcm.edu	37	6	47649222	47649222	+	Silent	SNP	T	T	G	rs8180544	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	73	110	0	0.598361	0	T|0.468;G|0.532	0.532	strong	GPR111_ENST00000296862,upper_leg,malignant_melanoma,+1,2	GPR111	123	2	NM_153839	exon7	c.T723G	p.S241S	TTTTTCTATGAGA	.	PASS	Atlas-SNP
ST6GALNAC1	55808	hgsc.bcm.edu	37	17	74625715	74625715	+	Silent	SNP	T	T	C	rs8081258	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	435	433	471	0	0.995402	0	T|0.901;C|0.099	0.099	strong	.	ST6GALNAC1	42	.	NM_018414	exon2	c.A210G	p.A70A	CCTCCTTGCCCTT	.	PASS	Atlas-SNP
TRIM7	81786	hgsc.bcm.edu	37	5	180622615	180622615	+	Missense_Mutation	SNP	C	C	T	rs254460	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	38	89	0	0.622951	0	C|0.831;T|0.169	0.169	strong	.	TRIM7	56	.	NM_203293	exon7	c.G1087A	p.G363S	GCACGCCCTTAAG	.	PASS	Atlas-SNP
CA6	765	hgsc.bcm.edu	37	1	9009406	9009406	+	Missense_Mutation	SNP	C	C	T	rs2274327	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	30	109	0	0.379747	0	C|0.706;N|0.000	.	strong	.	CA6	47	.	NM_001270500	exon2	c.C164T	p.T55M	AGAGGACGAAGGT	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27688109	27688109	+	Missense_Mutation	SNP	T	T	C	rs2429485	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	26	12	28	0	0.461538	0	T|0.414;C|0.586	0.586	strong	.	PTCHD3	140	.	NM_001034842	exon4	c.A1418G	p.D473G	ATGTCATCTGCAA	.	PASS	Atlas-SNP
ALX4	60529	hgsc.bcm.edu	37	11	44286566	44286566	+	Silent	SNP	G	G	A	rs3802805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	39	171	0	0.443182	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
PPTC7	160760	hgsc.bcm.edu	37	12	110974890	110974890	+	Silent	SNP	T	T	C	rs10849900	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	50	83	0	0.595238	0	T|0.725;C|0.275	0.275	strong	PPTC7,NS,carcinoma,0,1	PPTC7	30	1	NM_139283	exon6	c.A867G	p.P289P	GTCATCTGGCTTT	.	PASS	Atlas-SNP
PLEKHG3	26030	hgsc.bcm.edu	37	14	65197767	65197767	+	Silent	SNP	G	G	A	rs229624	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	36	88	0	0.413793	0	G|0.853;A|0.147	0.147	strong	.	PLEKHG3	89	.	NM_015549	exon5	c.G561A	p.K187K	TGCCAAGCATTTT	.	PASS	Atlas-SNP
OVCH1	341350	hgsc.bcm.edu	37	12	29596365	29596365	+	Missense_Mutation	SNP	T	T	C	rs78265994	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	34	56	0	0.485714	0	T|0.952;C|0.048	0.048	strong	.	OVCH1	195	.	NM_183378	exon25	c.A3086G	p.K1029R	GTTGGCTTCATCG	.	PASS	Atlas-SNP
APPL1	26060	hgsc.bcm.edu	37	3	57293908	57293908	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	23	184	0	0.167883	0	.	.	none	.	APPL1	59	.	NM_012096	exon17	c.C1519A	p.L507I	CGATTCCTTGGTT	.	PASS	Atlas-SNP
PARD3B	117583	hgsc.bcm.edu	37	2	205829991	205829991	+	Silent	SNP	C	C	T	rs236843	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	80	175	0	0.45977	0	C|0.267;T|0.732	0.732	strong	PARD3B_ENST00000358768,colon,carcinoma,0,3	PARD3B	314	3	NM_205863	exon3	c.C339T	p.A113A	ACTGGCCGCATTT	.	PASS	Atlas-SNP
CYP2C9	1559	hgsc.bcm.edu	37	10	96702047	96702047	+	Missense_Mutation	SNP	C	C	T	rs41400645		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	125	277	0	0.510204	0	C|1.000;|0.000	.	weak	.	CYP2C9	82	.	NM_000771	exon3	c.C430T	p.R144C	GAGGACCGTGTTC	.	PASS	Atlas-SNP
MTMR2	8898	hgsc.bcm.edu	37	11	95580926	95580926	+	Silent	SNP	G	G	A	rs566204	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	271	228	0	1	0	G|0.715;A|0.285	0.285	strong	.	MTMR2	79	.	NM_016156	exon10	c.C1131T	p.T377T	CCAGTGGGTTTCC	.	PASS	Atlas-SNP
DBF4	10926	hgsc.bcm.edu	37	7	87537188	87537188	+	Missense_Mutation	SNP	A	A	G	rs61747462	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	130	250	0	0.483271	0	A|0.992;G|0.008	0.008	strong	.	DBF4	67	.	NM_006716	exon12	c.A1735G	p.K579E	AAAGTGAAAATAA	.	PASS	Atlas-SNP
EFCAB7	84455	hgsc.bcm.edu	37	1	63999826	63999826	+	Missense_Mutation	SNP	C	C	T	rs6693255	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	50	198	0	0.362319	0	C|0.857;T|0.143	0.143	strong	EFCAB7,NS,carcinoma,+1,1	EFCAB7	45	1	NM_032437	exon6	c.C743T	p.T248I	CCTTCACAGTTAC	.	PASS	Atlas-SNP
POLDIP3	84271	hgsc.bcm.edu	37	22	43010817	43010817	+	Missense_Mutation	SNP	G	G	A	rs28627172	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	34	84	0	0.425	0	G|0.845;A|0.155	0.155	strong	POLDIP3_ENST00000339677,NS,carcinoma,0,2	POLDIP3	58	2	NM_178136	exon1	c.C47T	p.A16V	TTCGCCGCCGCCC	.	PASS	Atlas-SNP
OR6N1	128372	hgsc.bcm.edu	37	1	158736217	158736217	+	Missense_Mutation	SNP	G	G	A	rs857828	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	76	84	0	0.644068	0	G|0.994;A|0.006	0.006	strong	.	OR6N1	96	.	NM_001005185	exon1	c.C256T	p.L86F	CACTGAGCAAGTT	.	PASS	Atlas-SNP
KRTAP9-2	83899	hgsc.bcm.edu	37	17	39383012	39383012	+	Missense_Mutation	SNP	C	C	T	rs9903833	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	93	85	0	0.775	0	C|0.448;T|0.552	0.552	strong	.	KRTAP9-2	24	.	NM_031961	exon1	c.C106T	p.P36S	AGCACACCCTGCT	.	PASS	Atlas-SNP
FAM101A	144347	hgsc.bcm.edu	37	12	124798801	124798801	+	Silent	SNP	C	C	T	rs12318072	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	55	121	0	0.561224	0	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	.	PASS	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	37	13	39263023	39263023	+	Silent	SNP	C	C	T	rs12874397	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	38	67	0	0.469136	0	C|0.841;T|0.159	0.159	strong	.	FREM2	385	.	NM_207361	exon1	c.C1542T	p.A514A	GGCAGCCGGCCAG	.	PASS	Atlas-SNP
ALPK1	80216	hgsc.bcm.edu	37	4	113345147	113345147	+	Missense_Mutation	SNP	A	A	G	rs6533616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	25	57	0	0.390625	0	A|0.920;G|0.080	0.080	strong	.	ALPK1	125	.	NM_001102406	exon6	c.A523G	p.N175D	AGCAACAATGGAG	.	PASS	Atlas-SNP
CD44	960	hgsc.bcm.edu	37	11	35211471	35211471	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	120	198	0	0.502092	0	.	.	none	.	CD44	48	.	NM_001001391	exon5	c.G526A	p.D176N	ACTGATGATGACG	.	PASS	Atlas-SNP
DYX1C1	161582	hgsc.bcm.edu	37	15	55759193	55759193	+	Missense_Mutation	SNP	T	T	C	rs600753	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	42	77	0	0.591549	0	T|0.503;C|0.497	0.497	strong	.	DYX1C1	54	.	NM_001033560	exon5	c.A572G	p.E191G	TTTCTTTCTTCTT	.	PASS	Atlas-SNP
MOB3C	148932	hgsc.bcm.edu	37	1	47080665	47080665	+	Missense_Mutation	SNP	C	C	T	rs11211328	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	92	122	0	0.989247	0	C|0.743;T|0.257	0.257	strong	.	MOB3C	1	.	NM_145279	exon1	c.G84A	p.M28I	CTCATCCATCCCG	.	PASS	Atlas-SNP
SF3B1	23451	hgsc.bcm.edu	37	2	198270017	198270017	+	Silent	SNP	T	T	C	rs35493573	bycluster;byfrequency;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	77	134	0	0.578947	0	T|0.994;C|0.006	0.006	strong	SF3B1,NS,carcinoma,-2,1	SF3B1	1038	1	NM_012433	exon10	c.A1419G	p.Q473Q	AAAGTATTGAATA	.	PASS	Atlas-SNP
ADAM23	8745	hgsc.bcm.edu	37	2	207459467	207459467	+	Silent	SNP	C	C	T	rs3732079	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	115	232	0	0.481172	0	C|0.856;G|0.000;T|0.144	0.144	strong	ADAM23,NS,carcinoma,0,1	ADAM23	239	1	NM_003812	exon23	c.C2085T	p.A695A	TGGTGCCCATGTA	.	PASS	Atlas-SNP
GUCY2D	3000	hgsc.bcm.edu	37	17	7906519	7906519	+	Missense_Mutation	SNP	G	G	T	rs61749665	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	18	17	8	0	0.944444	0	G|0.623;T|0.377	0.377	strong	.	GUCY2D	82	.	NM_000180	exon2	c.G154T	p.A52S	CTCTCCGCCGTGT	.	PASS	Atlas-SNP
KRT77	374454	hgsc.bcm.edu	37	12	53088484	53088484	+	Missense_Mutation	SNP	C	C	T	rs10783528	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	53	95	0	0.546392	0	C|0.676;T|0.324	0.324	strong	.	KRT77	58	.	NM_175078	exon5	c.G1006A	p.D336N	CTGCATCGATGAT	.	PASS	Atlas-SNP
KIAA1324	57535	hgsc.bcm.edu	37	1	109737063	109737063	+	Silent	SNP	C	C	T	rs2359246	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	82	117	0	1	0	C|0.337;T|0.663	0.663	strong	.	KIAA1324	77	.	NM_020775	exon15	c.C1968T	p.N656N	CTACAACGATTGC	.	PASS	Atlas-SNP
KLRG1	10219	hgsc.bcm.edu	37	12	9161648	9161648	+	Silent	SNP	T	T	C	rs3026251	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	104	244	0	0.504854	0	T|0.754;C|0.246	0.246	strong	.	KLRG1	16	.	NM_005810	exon4	c.T435C	p.D145D	GGAAGATGGATCA	.	PASS	Atlas-SNP
SV2B	9899	hgsc.bcm.edu	37	15	91827271	91827271	+	Missense_Mutation	SNP	A	A	G	rs117361551	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	81	104	0	0.50625	0	A|0.990;G|0.010	0.010	strong	.	SV2B	98	.	NM_014848	exon12	c.A1528G	p.I510V	AAGTTCATCAACT	.	PASS	Atlas-SNP
ANGPT2	285	hgsc.bcm.edu	37	8	6371291	6371291	+	Silent	SNP	A	A	G	rs2916747	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	70	102	0	0.507246	0	A|0.859;G|0.141	0.141	strong	.	ANGPT2	126	.	NM_001147	exon7	c.T1107C	p.Y369Y	AAGCACATAGCGT	.	PASS	Atlas-SNP
TXNDC11	51061	hgsc.bcm.edu	37	16	11773662	11773662	+	Missense_Mutation	SNP	C	C	G	rs3190321	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	59	126	0	0.472	0	C|0.513;G|0.487	0.487	strong	.	TXNDC11	75	.	NM_015914	exon12	c.G2266C	p.V756L	TGGGGACGTCTTC	.	PASS	Atlas-SNP
LAMB3	3914	hgsc.bcm.edu	37	1	209823354	209823354	+	Silent	SNP	G	G	A	rs2228339	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	91	79	0	1	0	G|0.739;A|0.261	0.261	strong	LAMB3,NS,carcinoma,0,1	LAMB3	136	1	NM_000228	exon3	c.C138T	p.T46T	TCCACAGGTAGAT	.	PASS	Atlas-SNP
EHD1	10938	hgsc.bcm.edu	37	11	64645871	64645871	+	Silent	SNP	A	A	G	rs1211284	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	99	82	0	1	0	A|0.301;G|0.699	0.699	strong	.	EHD1	31	.	NM_006795	exon1	c.T66C	p.A22A	CCCCTCAGCCACC	.	PASS	Atlas-SNP
C21orf2	755	hgsc.bcm.edu	37	21	45750145	45750145	+	Missense_Mutation	SNP	T	T	C	rs11552066	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	20	50	0	0.454545	0	T|0.913;C|0.087	0.087	strong	.	C21orf2	10	.	NM_001271441	exon7	c.A1064G	p.Q355R	GTCTGCTGCACGG	.	PASS	Atlas-SNP
URB1	9875	hgsc.bcm.edu	37	21	33717877	33717877	+	Silent	SNP	G	G	A	rs2833779	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	34	60	0	0.459459	0	G|0.822;A|0.178	0.178	strong	.	URB1	176	.	NM_014825	exon23	c.C3876T	p.S1292S	GACAGCGGAAGAC	.	PASS	Atlas-SNP
FAM161A	84140	hgsc.bcm.edu	37	2	62066986	62066986	+	Missense_Mutation	SNP	G	G	C	rs139266382	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	257	114	276	0	0.44358	0	G|0.998;C|0.002	0.002	strong	.	FAM161A	200	.	NM_032180	exon3	c.C1153G	p.Q385E	TCAGCTGTGTCCT	.	PASS	Atlas-SNP
ARHGEF11	9826	hgsc.bcm.edu	37	1	156910020	156910020	+	Missense_Mutation	SNP	C	C	T	rs144803270		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	85	135	0	0.505952	0	C|1.000;T|0.000	0.000	weak	.	ARHGEF11	168	.	NM_198236	exon36	c.G3712A	p.A1238T	AGTCAGCGAGCCC	.	PASS	Atlas-SNP
AQPEP	0	hgsc.bcm.edu	37	5	115298518	115298518	+	Silent	SNP	A	A	G	rs12522632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	60	120	0	1	0	A|0.190;G|0.810	0.810	strong	FLJ90650,NS,carcinoma,0,1	.	.	1	NM_173800	exon1	c.A204G	p.P68P	GACGCCAACCCCG	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190878589	190878589	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	482	21	402	0	0.0435685	0	.	.	none	FRG1,NS,carcinoma,0,1	FRG1	76	1	NM_004477	exon6	c.A469G	p.I157V	TGCTTTATTAGAT	.	scavenged	Atlas-SNP
CCDC81	60494	hgsc.bcm.edu	37	11	86123467	86123467	+	Silent	SNP	G	G	A	rs3741006	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	129	114	0	1	0	G|0.678;A|0.322	0.322	strong	.	CCDC81	89	.	NM_001156474	exon11	c.G1257A	p.A419A	TCCTGCGCTTAAT	.	PASS	Atlas-SNP
UBXN10	127733	hgsc.bcm.edu	37	1	20517187	20517187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	3	154	0	0.0243902	0	.	.	none	UBXN10,NS,carcinoma,0,3	UBXN10	29	3	NM_152376	exon2	c.C133T	p.R45W	AAGGGACGGACAA	.	scavenged	Atlas-SNP
RHOU	58480	hgsc.bcm.edu	37	1	228871693	228871693	+	Silent	SNP	C	C	T	rs3738073	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	14	18	0	0.5	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
ABL1	25	hgsc.bcm.edu	37	9	133760380	133760380	+	Silent	SNP	C	C	G	rs56017837	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	39	80	0	0.4875	0	.	.	weak	.	ABL1	1632	.	NM_007313	exon11	c.C2760G	p.P920P	GCCGCCCCCACCA	.	PASS	Atlas-SNP
ZNF709	163051	hgsc.bcm.edu	37	19	12576049	12576049	+	Silent	SNP	G	G	A	rs7259240	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	74	172	0	0.402174	0	G|0.611;A|0.389	0.389	strong	.	ZNF709	80	.	NM_152601	exon4	c.C687T	p.C229C	TTTCCCGCATTCT	.	PASS	Atlas-SNP
ADRBK1	156	hgsc.bcm.edu	37	11	67034266	67034266	+	Silent	SNP	C	C	A	rs2228418	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	22	23	0	1	0	C|0.360;A|0.640	0.640	strong	.	ADRBK1	51	.	NM_001619	exon1	c.C96A	p.I32I	GAAGATCCTGCTG	.	PASS	Atlas-SNP
KIAA1432	57589	hgsc.bcm.edu	37	9	5774225	5774225	+	Silent	SNP	T	T	G	rs3739648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	54	117	0	0.509434	0	T|0.717;G|0.283	0.283	strong	KIAA1432,NS,carcinoma,+2,1	KIAA1432	97	1	NM_020829	exon26	c.T4251G	p.T1417T	TGGGACTTACGAC	.	PASS	Atlas-SNP
DENND6B	414918	hgsc.bcm.edu	37	22	50753263	50753263	+	Silent	SNP	G	G	A	rs113856947	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	76	227	0	0.408602	0	G|0.994;A|0.006	0.006	strong	.	.	.	.	NM_001001794	exon10	c.C846T	p.P282P	CACGTCGGGCGAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	36	57	0	0.455696	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
CSPG4	1464	hgsc.bcm.edu	37	15	75982185	75982185	+	Silent	SNP	T	T	C	rs77341302	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	45	154	1	0.338346	0.00649351	T|0.983;C|0.018	0.018	strong	CSPG4,NS,carcinoma,-2,1	CSPG4	175	1	NM_001897	exon3	c.A1221G	p.P407P	CATGGCTGGCCAA	.	scavenged	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32552072	32552072	+	Missense_Mutation	SNP	T	T	G	rs17879995	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	43	67	0	0.40566	0	T|0.871;G|0.129	0.129	strong	.	HLA-DRB1	41	.	NM_002124	exon2	c.A184C	p.N62H	CCTGGTTATAGAA	.	PASS	Atlas-SNP
PNPLA5	150379	hgsc.bcm.edu	37	22	44282276	44282276	+	Missense_Mutation	SNP	A	A	G	rs739231	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	33	55	0	0.402439	0	A|0.572;G|0.428	0.428	strong	.	PNPLA5	46	.	NM_138814	exon6	c.T856C	p.W286R	CCTTCCAGCGTTG	.	PASS	Atlas-SNP
SLC15A1	6564	hgsc.bcm.edu	37	13	99376181	99376181	+	Missense_Mutation	SNP	C	C	T	rs2297322	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	80	150	0	0.509554	0	C|0.768;T|0.232	0.232	strong	.	SLC15A1	92	.	NM_005073	exon5	c.G350A	p.S117N	GGAAGGCTGTCGG	.	PASS	Atlas-SNP
TSC2	7249	hgsc.bcm.edu	37	16	2136842	2136842	+	Silent	SNP	C	C	T	rs45517384	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	43	84	0	0.505882	0	C|0.992;T|0.008	0.008	strong	.	TSC2	364	.	NM_000548	exon38	c.C4959T	p.S1653S	TGACTCCGGTGAG	.	PASS	Atlas-SNP
OBP2A	29991	hgsc.bcm.edu	37	9	138439809	138439809	+	Missense_Mutation	SNP	T	T	C	rs72766544	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	40	80	0	0.47619	0	T|0.804;C|0.196	0.196	strong	.	OBP2A	21	.	NM_014582	exon4	c.T370C	p.Y124H	CTGCGCTACATGG	.	PASS	Atlas-SNP
FAM209B	388799	hgsc.bcm.edu	37	20	55108510	55108510	+	Missense_Mutation	SNP	G	G	A	rs201542308		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	29	284	0	0.154255	0	.	.	weak	.	.	.	.	NM_001013646	exon1	c.G113A	p.C38Y	TGCCGTGTGGAGA	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234327	45234327	+	Missense_Mutation	SNP	C	C	T	rs7350889	bycluster;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	4	55	1	0.0655738	0.0181818	C|1.000;|0.000	.	weak	CDC27_ENST00000531206,NS,adenoma,0,4	CDC27	337	4	NM_001114091	exon7	c.G794A	p.G265D	CTTCGACCAGTTT	.	scavenged	Atlas-SNP
CHRNA7	1139	hgsc.bcm.edu	37	15	32450704	32450704	+	Silent	SNP	G	G	A	rs201822909	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1143	397	1058	33	0.347332	0.0311909	G|0.705;A|0.295	0.295	strong	CHRNA7_ENST00000437966,caecum,carcinoma,0,11	CHRNA7	57	11	NM_001190455	exon7	c.G777A	p.T259T	CAGGACGCTCTAC	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9049910	9049910	+	Missense_Mutation	SNP	C	C	T	rs56307190	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	290	154	302	1	0.531034	0.00331126	C|0.794;T|0.206	0.206	strong	.	MUC16	4315	.	NM_024690	exon5	c.G31721A	p.R10574H	CCAGAACGAGAGA	.	PASS	Atlas-SNP
STOML2	30968	hgsc.bcm.edu	37	9	35101522	35101522	+	Silent	SNP	G	G	A	rs35119429	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	50	78	0	0.520833	0	G|0.972;A|0.028	0.028	strong	.	STOML2	27	.	NM_013442	exon6	c.C480T	p.A160A	GTTGATGGCATCC	.	PASS	Atlas-SNP
EPHB2	2048	hgsc.bcm.edu	37	1	23208925	23208925	+	Silent	SNP	G	G	A	rs2229872	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	42	88	0	0.482759	0	G|0.854;A|0.146	0.146	strong	EPHB2_ENST00000374632,NS,adenoma,0,1	EPHB2	257	1	NM_004442	exon6	c.G1377A	p.P459P	CCAGCCGGACCAG	.	PASS	Atlas-SNP
SLC16A4	9122	hgsc.bcm.edu	37	1	110925550	110925550	+	Silent	SNP	T	T	G	rs35653868	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	36	114	0	0.321429	0	T|0.946;G|0.054	0.054	strong	.	SLC16A4	47	.	NM_001201546	exon3	c.A126C	p.A42A	GAAAATTGCAAAA	.	PASS	Atlas-SNP
EDEM3	80267	hgsc.bcm.edu	37	1	184663581	184663581	+	Silent	SNP	T	T	C	rs9425634	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	111	86	0	1	0	T|0.612;C|0.388	0.388	strong	.	EDEM3	63	.	NM_025191	exon20	c.A2415G	p.Q805Q	GGATGGTTGTTCT	.	PASS	Atlas-SNP
ZAP70	7535	hgsc.bcm.edu	37	2	98354511	98354511	+	Silent	SNP	G	G	A	rs3192177	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	80	154	0	0.45977	0	G|0.786;A|0.214	0.214	strong	.	ZAP70	77	.	NM_001079	exon13	c.G1677A	p.E559E	GATGGAGTGCCCA	.	PASS	Atlas-SNP
DDX58	23586	hgsc.bcm.edu	37	9	32459450	32459450	+	Silent	SNP	T	T	G	rs3205166	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	55	140	0	0.443548	0	T|0.672;G|0.328	0.328	strong	.	DDX58	82	.	NM_014314	exon17	c.A2400C	p.V800V	ATCAGGTACAGGT	.	PASS	Atlas-SNP
PPP6R1	22870	hgsc.bcm.edu	37	19	55756980	55756980	+	Silent	SNP	A	A	G	rs3745920	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	17	66	0	0.320755	0	A|0.789;G|0.211	0.211	strong	PPP6R1_ENST00000412770,NS,carcinoma,0,2	PPP6R1	63	2	NM_014931	exon3	c.T294C	p.A98A	CTCATCAGCACCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	98	219	0	0.478049	0	G|0.389;N|0.000	0.389	strong	.	PTPN21	113	.	NM_007039	exon15	c.T2807C	p.V936A	ACTCTCACATCAT	.	PASS	Atlas-SNP
CD207	50489	hgsc.bcm.edu	37	2	71058226	71058226	+	Silent	SNP	C	C	T	rs2080390	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	76	166	0	0.444444	0	C|0.863;T|0.137	0.137	strong	.	CD207	47	.	NM_015717	exon6	c.G942A	p.T314T	AAGAAACGTTTTG	.	PASS	Atlas-SNP
TGM4	7047	hgsc.bcm.edu	37	3	44943104	44943104	+	Missense_Mutation	SNP	G	G	C	rs937838	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	131	190	0	0.685864	0	G|0.924;C|0.076	0.076	strong	TGM4,NS,carcinoma,0,1	TGM4	82	1	NM_003241	exon7	c.G746C	p.S249T	CAGGCAGTGCCCC	.	PASS	Atlas-SNP
GRK6	2870	hgsc.bcm.edu	37	5	176867943	176867943	+	Silent	SNP	A	A	G	rs335435	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	95	96	0	1	0	A|0.553;G|0.447	0.447	strong	.	GRK6	48	.	NM_002082	exon15	c.A1566G	p.Q522Q	CTTCCAAGAGCTG	.	PASS	Atlas-SNP
PASK	23178	hgsc.bcm.edu	37	2	242082262	242082262	+	Silent	SNP	T	T	C	rs6709462	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	41	67	0	0.585714	0	T|0.480;C|0.520	0.520	strong	PASK_ENST00000234040,colon,carcinoma,-1,2	PASK	230	2	NM_001252122	exon2	c.A186G	p.T62T	GAGCGCTGTCCTG	.	PASS	Atlas-SNP
KLHDC8A	55220	hgsc.bcm.edu	37	1	205306590	205306590	+	Silent	SNP	G	G	A	rs3210952	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	111	115	0	1	0	G|0.841;A|0.159	0.159	strong	.	KLHDC8A	31	.	NM_018203	exon6	c.C990T	p.A330A	TCCCACGGCGAGG	.	PASS	Atlas-SNP
OR4L1	122742	hgsc.bcm.edu	37	14	20529043	20529043	+	Silent	SNP	C	C	G	rs1959628	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	120	128	0	0.991736	0	C|0.638;G|0.362	0.362	strong	.	OR4L1	98	.	NM_001004717	exon1	c.C840G	p.P280P	CACACCCTTACTG	.	PASS	Atlas-SNP
DEAF1	10522	hgsc.bcm.edu	37	11	654043	654043	+	Silent	SNP	G	G	A	rs10902188	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	26	42	0	0.52	0	G|0.911;A|0.089	0.089	strong	.	DEAF1	47	.	NM_021008	exon11	c.C1512T	p.C504C	GTTAACGCAGGAC	.	PASS	Atlas-SNP
KRTAP5-3	387266	hgsc.bcm.edu	37	11	1628948	1628948	+	Missense_Mutation	SNP	G	G	A	rs117085626	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	103	157	0	0.530928	0	G|0.917;A|0.083	0.083	strong	.	KRTAP5-3	33	.	NM_001012708	exon1	c.C668T	p.S223F	TGGGAGGAGCAGG	.	PASS	Atlas-SNP
SEMA5B	54437	hgsc.bcm.edu	37	3	122630346	122630346	+	Missense_Mutation	SNP	T	T	C	rs2303983	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	16	43	0	0.347826	0	T|0.335;C|0.665	0.665	strong	.	SEMA5B	303	.	NM_001256347	exon21	c.A3245G	p.D1082G	GCACAGTCGGTGG	.	PASS	Atlas-SNP
MYH3	4621	hgsc.bcm.edu	37	17	10542765	10542765	+	Silent	SNP	A	A	G	rs2285474	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	219	190	0	0.995455	0	G|0.531;N|0.001	0.531	strong	.	MYH3	227	.	NM_002470	exon24	c.T2952C	p.S984S	TAACCCAGAGAGT	.	PASS	Atlas-SNP
ZNF286A	57335	hgsc.bcm.edu	37	17	15604485	15604485	+	Silent	SNP	T	T	C	rs78494624	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	300	56	223	0	0.186667	0	T|0.895;C|0.105	0.105	strong	ZNF286A,NS,carcinoma,0,1	ZNF286A	58	1	NM_020652	exon3	c.T57C	p.S19S	GGATTCTCCCCAT	.	PASS	Atlas-SNP
RRBP1	6238	hgsc.bcm.edu	37	20	17600357	17600357	+	Missense_Mutation	SNP	G	G	A	rs11960	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	112	122	0	1	0	G|0.509;A|0.491	0.491	strong	.	RRBP1	157	.	NM_004587	exon19	c.C2297T	p.S766L	AAATGCGACGTGT	.	PASS	Atlas-SNP
MAGEB16	139604	hgsc.bcm.edu	37	X	35821055	35821055	+	Missense_Mutation	SNP	A	A	G	rs4829390	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	119	217	0	1	0	A|0.455;G|0.545	0.545	strong	.	MAGEB16	64	.	NM_001099921	exon2	c.A742G	p.M248V	CCCAGAATGCTCA	.	PASS	Atlas-SNP
ENPP5	59084	hgsc.bcm.edu	37	6	46129345	46129345	+	Silent	SNP	G	G	A	rs2235881	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	66	138	0	0.370787	0	G|0.569;T|0.002	.	strong	.	ENPP5	44	.	NM_021572	exon4	c.C1152T	p.T384T	CATGGCGGTGATA	.	PASS	Atlas-SNP
DOC2A	8448	hgsc.bcm.edu	37	16	30018500	30018500	+	Silent	SNP	C	C	T	rs3935873	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	43	58	0	0.483146	0	C|0.660;T|0.340	0.340	strong	.	DOC2A	40	.	NM_003586	exon6	c.G648A	p.Q216Q	CGGGACCTGGCGC	.	PASS	Atlas-SNP
CCDC124	115098	hgsc.bcm.edu	37	19	18047283	18047283	+	Silent	SNP	T	T	G	rs4808722	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	66	87	0	0.5	0	T|0.594;G|0.406	0.406	strong	.	CCDC124	8	.	NM_138442	exon2	c.T54G	p.R18R	GGCACGTAGGGCA	.	PASS	Atlas-SNP
MAP3K11	4296	hgsc.bcm.edu	37	11	65367223	65367223	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	4	28	0	0.133333	0	.	.	none	.	MAP3K11	67	.	NM_002419	exon9	c.T1848C	p.P616P	CAGGCTAGGCCGC	.	PASS	Atlas-SNP
FUT5	2527	hgsc.bcm.edu	37	19	5867177	5867177	+	Missense_Mutation	SNP	G	G	A	rs79852809	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	74	185	0	0.493333	0	A|1.000;|0.000	1.000	weak	.	FUT5	29	.	NM_002034	exon2	c.C560T	p.P187L	GACCACGGCTCCA	.	PASS	Atlas-SNP
DCLRE1A	9937	hgsc.bcm.edu	37	10	115609915	115609915	+	Missense_Mutation	SNP	C	C	G	rs3750898	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	52	90	0	0.45614	0	C|0.339;G|0.661	0.661	strong	.	DCLRE1A	80	.	NM_014881	exon2	c.G949C	p.D317H	AATCATCCGGTTT	.	PASS	Atlas-SNP
NIPSNAP1	8508	hgsc.bcm.edu	37	22	29957570	29957570	+	Silent	SNP	G	G	A	rs1058642	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	57	78	0	0.513514	0	G|0.757;A|0.243	0.243	strong	.	NIPSNAP1	17	.	NM_003634	exon6	c.C504T	p.L168L	GAACTCGAGGAGC	.	PASS	Atlas-SNP
KIAA1377	57562	hgsc.bcm.edu	37	11	101832590	101832590	+	Missense_Mutation	SNP	C	C	A	rs11225089	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	52	122	0	0.468468	0	C|0.932;A|0.068	0.068	strong	KIAA1377,NS,carcinoma,+1,1	KIAA1377	111	1	NM_020802	exon6	c.C824A	p.S275Y	CCACATCCATCCA	.	PASS	Atlas-SNP
SOLH	6650	hgsc.bcm.edu	37	16	601632	601632	+	Silent	SNP	T	T	C	rs3213574	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	21	75	0	0.477273	0	T|0.359;C|0.641	0.641	strong	SOLH,NS,carcinoma,+1,1	SOLH	47	1	NM_005632	exon9	c.T2313C	p.G771G	TGAGGGTGTCTTC	.	PASS	Atlas-SNP
CHRNB3	1142	hgsc.bcm.edu	37	8	42587659	42587659	+	Silent	SNP	G	G	C	rs4953	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	55	100	0	0.561224	0	G|0.959;C|0.041	0.041	strong	CHRNB3,NS,carcinoma,0,1	CHRNB3	74	1	NM_000749	exon5	c.G1209C	p.S403S	CATTTCGAGACAT	.	PASS	Atlas-SNP
CERK	64781	hgsc.bcm.edu	37	22	47095235	47095235	+	Missense_Mutation	SNP	C	C	A	rs13057352	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	50	184	0	0.284091	0	C|0.973;A|0.027	0.027	strong	.	CERK	40	.	NM_022766	exon8	c.G918T	p.L306F	AAGACCCAACCAC	.	PASS	Atlas-SNP
ARRB2	409	hgsc.bcm.edu	37	17	4622638	4622638	+	Silent	SNP	C	C	T	rs1045280	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	173	141	0	1	0	C|0.376;T|0.624	0.624	strong	.	ARRB2	30	.	NM_001257328	exon11	c.C903T	p.S301S	GCTCAGCGACAAC	.	PASS	Atlas-SNP
HJURP	55355	hgsc.bcm.edu	37	2	234761225	234761225	+	Missense_Mutation	SNP	C	C	T	rs2286430	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	82	91	0	1	0	C|0.621;T|0.379	0.379	strong	.	HJURP	72	.	NM_018410	exon3	c.G226A	p.E76K	CTCCTTCGTTTCT	.	PASS	Atlas-SNP
FAM81A	145773	hgsc.bcm.edu	37	15	59806496	59806496	+	Missense_Mutation	SNP	G	G	T	rs111778770	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	49	89	0	0.480392	0	G|0.995;T|0.005	0.005	strong	.	FAM81A	31	.	NM_152450	exon7	c.G659T	p.G220V	TTAAAGGTACAGT	.	PASS	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	37	18	44063598	44063598	+	Missense_Mutation	SNP	G	G	A	rs1377016	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	166	168	0	0.994012	0	G|0.598;A|0.402	0.402	strong	.	LOXHD1	367	.	NM_144612	exon39	c.C6107T	p.A2036V	TGCCAGGCAAGTT	.	PASS	Atlas-SNP
TUBGCP5	114791	hgsc.bcm.edu	37	15	22846932	22846932	+	Silent	SNP	G	G	A	rs118137061	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	24	85	0	0.461538	0	G|0.988;A|0.012	0.012	strong	.	TUBGCP5	82	.	NM_052903	exon8	c.G807A	p.Q269Q	GACTCAGGTTATT	.	PASS	Atlas-SNP
MCF2L	23263	hgsc.bcm.edu	37	13	113728781	113728781	+	Silent	SNP	G	G	A	rs3814264	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	206	155	0	0.995169	0	G|0.809;A|0.191	0.191	strong	.	MCF2L	182	.	NM_001112732	exon10	c.G1020A	p.A340A	CGCAGCGTCCCAG	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	37	7	141796131	141796131	+	Silent	SNP	G	G	A	rs79724212		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	528	428	503	1	0.810606	0.00198807	.	.	weak	.	MGAM	767	.	NM_004668	exon42	c.G4920A	p.E1640E	TTCCAGGTTTGTG	.	PASS	Atlas-SNP
SRGAP1	57522	hgsc.bcm.edu	37	12	64485153	64485153	+	Missense_Mutation	SNP	G	G	A	rs74691643	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	37	62	0	0.587302	0	G|0.983;A|0.017	0.017	strong	.	SRGAP1	146	.	NM_020762	exon12	c.G1534A	p.V512I	ACATTCGTCAAGG	.	PASS	Atlas-SNP
RHOBTB3	22836	hgsc.bcm.edu	37	5	95091201	95091201	+	Missense_Mutation	SNP	A	A	G	rs34899	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	277	134	264	0	0.483755	0	A|0.561;G|0.439	0.439	strong	.	RHOBTB3	43	.	NM_014899	exon6	c.A784G	p.N262D	AACCCCAATTTAA	.	PASS	Atlas-SNP
ANGEL1	23357	hgsc.bcm.edu	37	14	77275630	77275630	+	Missense_Mutation	SNP	C	C	A	rs34270005	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	42	83	0	0.518519	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
SAGE1	55511	hgsc.bcm.edu	37	X	134991078	134991078	+	Silent	SNP	A	A	G	rs5974570	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	134	235	0	1	0	A|0.806;G|0.194	0.194	strong	.	SAGE1	160	.	NM_018666	exon13	c.A1497G	p.Q499Q	ACCCCAAACTGAT	.	PASS	Atlas-SNP
MTHFR	4524	hgsc.bcm.edu	37	1	11854896	11854896	+	Silent	SNP	G	G	A	rs2066462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	41	109	0	0.418367	0	G|0.910;A|0.090	0.090	strong	.	MTHFR	65	.	NM_005957	exon7	c.C1056T	p.S352S	GTGGGCGCTGAGA	.	PASS	Atlas-SNP
WBP1L	54838	hgsc.bcm.edu	37	10	104572963	104572963	+	Missense_Mutation	SNP	T	T	C	rs284860	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	53	93	0	0.452991	0	T|0.431;G|0.002	.	strong	.	.	.	.	NM_001083913	exon4	c.T967C	p.S323P	TGTCAGTCCTCTG	.	PASS	Atlas-SNP
SUPT3H	8464	hgsc.bcm.edu	37	6	44982593	44982593	+	Silent	SNP	G	G	A	rs12528232	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	106	150	0	0.585635	0	G|0.873;A|0.127	0.127	strong	.	SUPT3H	75	.	NM_181356	exon7	c.C342T	p.I114I	GTCTCGGATAAAC	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240729	39240729	+	Missense_Mutation	SNP	A	A	G	rs200532954	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	33	112	5	0.286957	0.0446429	.	.	weak	KRTAP4-9_ENST00000377734,bladder,carcinoma,0,4	KRTAP4-7	49	4	NM_033061	exon1	c.A271G	p.M91V	TGCTGTATGTCCA	.	scavenged	Atlas-SNP
ZNF878	729747	hgsc.bcm.edu	37	19	12154799	12154799	+	Missense_Mutation	SNP	G	G	C	rs67102109	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	27	62	0	0.385714	0	G|0.927;C|0.073	0.073	strong	.	ZNF878	172	.	NM_001080404	exon4	c.C1417G	p.H473D	CAGTGTGAGTCCT	.	PASS	Atlas-SNP
STAG3	10734	hgsc.bcm.edu	37	7	99778285	99778285	+	Missense_Mutation	SNP	A	A	C	rs2272343	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	31	102	0	0.3875	0	A|0.837;C|0.163	0.163	strong	STAG3,NS,carcinoma,0,1	STAG3	121	1	NM_012447	exon2	c.A106C	p.T36P	AACCATACCTCAG	.	PASS	Atlas-SNP
PECR	55825	hgsc.bcm.edu	37	2	216908679	216908679	+	Silent	SNP	C	C	T	rs2303842	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	222	112	242	0	0.504505	0	C|0.838;T|0.161	0.161	strong	PECR,NS,carcinoma,0,1	PECR	22	1	NM_018441	exon7	c.G774A	p.S258S	ATCCACCGACTGT	.	PASS	Atlas-SNP
OR4A16	81327	hgsc.bcm.edu	37	11	55111238	55111238	+	Missense_Mutation	SNP	C	C	A	rs11229158	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	113	294	0	0.47479	0	C|0.584;A|0.416	0.416	strong	.	OR4A16	120	.	NM_001005274	exon1	c.C562A	p.L188I	TTGTGCCTTGACA	.	PASS	Atlas-SNP
TRIO	7204	hgsc.bcm.edu	37	5	14368975	14368975	+	Silent	SNP	C	C	T	rs13189406	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	73	200	0	0.347619	0	C|0.797;T|0.203	0.203	strong	.	TRIO	305	.	NM_007118	exon17	c.C3033T	p.N1011N	CGTCAACGCCTCT	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152510429	152510429	+	Silent	SNP	G	G	A	rs139590550	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	42	97	0	0.477273	0	G|0.998;A|0.002	0.002	strong	SYNE1_ENST00000423061,caecum,carcinoma,0,7	SYNE1	3227	7	NM_182961	exon128	c.C23259T	p.R7753R	CTCTACGCGTTCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	56	107	0	0.495575	0	C|0.587;G|0.413	0.413	strong	.	ALS2CL	78	.	NM_001190707	exon3	c.G133C	p.E45Q	GGCACTCTCTGCC	.	PASS	Atlas-SNP
CPZ	8532	hgsc.bcm.edu	37	4	8594616	8594616	+	Missense_Mutation	SNP	G	G	C	rs79736750	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	18	58	0	0.5625	0	G|0.910;C|0.090	0.090	strong	.	CPZ	95	.	NM_003652	exon1	c.G56C	p.R19P	CTGCCCGGCCGGG	.	PASS	Atlas-SNP
KRT74	121391	hgsc.bcm.edu	37	12	52966368	52966368	+	Silent	SNP	C	C	T	rs78832381	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	270	116	224	0	0.42963	0	C|0.974;T|0.026	0.026	strong	.	KRT74	67	.	NM_175053	exon2	c.G555A	p.K185K	CAGGTTCTTCTTG	.	PASS	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	37	17	29214387	29214387	+	Missense_Mutation	SNP	T	T	C	rs11657270	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	113	88	0	1	0	T|0.887;C|0.113	0.113	strong	.	ATAD5	150	.	NM_024857	exon19	c.T4255C	p.Y1419H	ACCCTTTATCGTA	.	PASS	Atlas-SNP
ANGPTL2	23452	hgsc.bcm.edu	37	9	129854199	129854199	+	Silent	SNP	G	G	A	rs2297866	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	110	195	0	0.506912	0	G|0.672;A|0.328	0.328	strong	.	ANGPTL2	46	.	NM_012098	exon4	c.C1032T	p.D344D	TTCGCCGTCAATG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	132	119	0	0.992481	0	G|0.588;C|0.412	0.412	strong	.	SEC16B	92	.	NM_033127	exon21	c.C2590G	p.P864A	TTCGTGGTCTAGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511556	195511556	+	Missense_Mutation	SNP	T	T	A	rs79961534	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	67	146	2	0.330049	0.0136986	T|0.996;A|0.004	0.004	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.A6895T	p.T2299S	GACCTGTGGATGC	.	scavenged	Atlas-SNP
BTBD11	121551	hgsc.bcm.edu	37	12	108035903	108035903	+	Silent	SNP	T	T	C	rs9919712	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	102	204	0	0.46789	0	T|0.779;C|0.221	0.221	strong	.	BTBD11	122	.	NM_001018072	exon14	c.T2877C	p.D959D	AAATGATGGCACC	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32557504	32557504	+	Missense_Mutation	SNP	G	G	A	rs17879020	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	390	79	262	0	0.202564	0	G|0.978;A|0.022	0.022	strong	.	HLA-DRB1	41	.	NM_002124	exon1	c.C16T	p.L6F	CAGGGAGCTTCAG	.	PASS	Atlas-SNP
HTRA1	5654	hgsc.bcm.edu	37	10	124268261	124268261	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	11	52	0	0.171875	0	.	.	none	HTRA1,colon,carcinoma,+2,2	HTRA1	40	2	NM_002775	exon6	c.G1095A	p.T365T	CCTCACGGAGTCC	.	PASS	Atlas-SNP
OR12D3	81797	hgsc.bcm.edu	37	6	29342775	29342775	+	Missense_Mutation	SNP	G	G	A	rs3749971	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	68	110	0	0.519084	0	G|0.942;A|0.058	0.058	strong	OR12D3,NS,carcinoma,0,3	OR12D3	55	3	NM_030959	exon1	c.C290T	p.T97I	AGCTGGGTGATAC	.	PASS	Atlas-SNP
NMS	129521	hgsc.bcm.edu	37	2	101086966	101086966	+	Missense_Mutation	SNP	C	C	T	rs13411940	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	49	108	0	0.5	0	C|0.746;T|0.254	0.254	strong	NMS,NS,carcinoma,0,1	NMS	26	1	NM_001011717	exon1	c.C16T	p.P6S	CTTCGTCCCCAGT	.	PASS	Atlas-SNP
MYO5A	4644	hgsc.bcm.edu	37	15	52689631	52689631	+	Missense_Mutation	SNP	T	T	G	rs1724577	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	189	201	2	1	0.00995025	T|0.066;G|0.934	0.934	strong	.	MYO5A	145	.	NM_000259	exon10	c.A1086C	p.E362D	CATGAGTTCACAG	.	PASS	Atlas-SNP
VWA5B1	127731	hgsc.bcm.edu	37	1	20656824	20656824	+	Missense_Mutation	SNP	A	A	G	rs2072752	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	45	162	0	0.378151	0	A|0.806;G|0.194	0.194	strong	VWA5B1,NS,carcinoma,0,1	VWA5B1	44	1	NM_001039500	exon10	c.A1406G	p.N469S	CTGTCAACAACAC	.	PASS	Atlas-SNP
GAK	2580	hgsc.bcm.edu	37	4	843508	843508	+	Missense_Mutation	SNP	C	C	T	rs1134921	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	77	199	0	0.427778	0	C|0.900;T|0.100	0.100	strong	.	GAK	104	.	NM_005255	exon28	c.G3889A	p.D1297N	AGGCGTCATTCAG	.	PASS	Atlas-SNP
ACTN2	88	hgsc.bcm.edu	37	1	236925844	236925844	+	Silent	SNP	G	G	A	rs12063382	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	74	127	0	0.4	0	G|0.832;A|0.168	0.168	strong	.	ACTN2	191	.	NM_001103	exon21	c.G2610A	p.S870S	CTACTCGGGCCCA	.	PASS	Atlas-SNP
CEP120	153241	hgsc.bcm.edu	37	5	122718736	122718736	+	Missense_Mutation	SNP	G	G	C	rs6595440	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	189	216	0	1	0	G|0.598;C|0.402	0.402	strong	.	CEP120	72	.	NM_153223	exon13	c.C1804G	p.L602V	CTTCTAGAGTCAC	.	PASS	Atlas-SNP
ARHGEF37	389337	hgsc.bcm.edu	37	5	149001551	149001551	+	Missense_Mutation	SNP	A	A	C	rs4629585	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	154	251	0	0.618474	0	A|0.596;C|0.404	0.404	strong	.	ARHGEF37	45	.	NM_001001669	exon9	c.A1261C	p.M421L	CAGATCATGTGCA	.	PASS	Atlas-SNP
CYYR1	116159	hgsc.bcm.edu	37	21	27852724	27852724	+	Silent	SNP	A	A	G	rs966410	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	77	87	0	0.987179	0	A|0.549;G|0.451	0.451	strong	.	CYYR1	38	.	NM_052954	exon3	c.T201C	p.V67V	TCCAAAAACAATG	.	PASS	Atlas-SNP
SLC22A25	387601	hgsc.bcm.edu	37	11	62951221	62951221	+	Missense_Mutation	SNP	C	C	G	rs11231397	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	260	257	226	0	0.988462	0	C|0.621;G|0.379	0.379	strong	.	SLC22A25	87	.	NM_199352	exon5	c.G899C	p.R300T	GCTTTTCTAAGTT	.	PASS	Atlas-SNP
HSDL2	84263	hgsc.bcm.edu	37	9	115167994	115167994	+	Missense_Mutation	SNP	A	A	T	rs41280175	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	32	65	0	0.695652	0	A|0.995;T|0.005	0.005	strong	.	HSDL2	24	.	NM_032303	exon3	c.A272T	p.K91I	TCAAGAAATTTGG	.	PASS	Atlas-SNP
TMEM259	91304	hgsc.bcm.edu	37	19	1014377	1014377	+	Silent	SNP	A	A	G	rs1058506	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	63	208	0	0.336898	0	A|0.821;G|0.179	0.179	strong	C19orf6,NS,carcinoma,-1,2	.	.	2	NM_033420	exon2	c.T321C	p.R107R	GCCCTCACGCGGC	.	PASS	Atlas-SNP
SLCO1C1	53919	hgsc.bcm.edu	37	12	20905250	20905250	+	Missense_Mutation	SNP	C	C	T	rs6487138	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	76	148	0	0.463415	0	C|0.547;T|0.453	0.453	strong	.	SLCO1C1	216	.	NM_001145946	exon16	c.C2030T	p.S677F	ATATATCTGGGAC	.	PASS	Atlas-SNP
PRKAR1A	5573	hgsc.bcm.edu	37	17	66511627	66511627	+	Silent	SNP	G	G	A	rs3730349	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	38	98	0	0.463415	0	G|0.986;A|0.014	0.014	strong	.	PRKAR1A	48	.	NM_001276290	exon1	c.G87A	p.A29A	TCAAGCGCTGCTC	.	PASS	Atlas-SNP
FOXD4L1	200350	hgsc.bcm.edu	37	2	114256840	114256840	+	Silent	SNP	C	C	T	rs2441583	by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	91	304	1	0.376033	0.00328947	.	.	weak	FOXD4L1,colon,carcinoma,-2,1	FOXD4L1	48	1	NM_012184	exon1	c.C7T	p.L3L	ATGAACCTGCCAA	.	PASS	Atlas-SNP
SURF2	6835	hgsc.bcm.edu	37	9	136228006	136228006	+	Silent	SNP	G	G	A	rs34939258	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	39	79	0	0.46988	0	G|0.940;A|0.060	0.060	strong	.	SURF2	9	.	NM_017503	exon6	c.G762A	p.Q254Q	TAAACAGCCAGGT	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1537839	1537839	+	Missense_Mutation	SNP	G	G	A	rs2745101	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	38	99	0	0.513514	0	G|0.753;A|0.247	0.247	strong	.	PTX4	46	.	NM_001013658	exon2	c.C259T	p.R87W	GTGACCGGTTGAC	.	PASS	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	37	10	3181126	3181126	+	Missense_Mutation	SNP	C	C	T	rs17849904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	87	122	0	0.54375	0	C|0.954;T|0.046	0.046	strong	.	PITRM1	109	.	NM_001242307	exon25	c.G2890A	p.V964I	CATCTACGGTTGA	.	PASS	Atlas-SNP
FGF21	26291	hgsc.bcm.edu	37	19	49261218	49261218	+	Missense_Mutation	SNP	G	G	A	rs142980324	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	57	153	0	0.431818	0	G|1.000;A|0.000	0.000	weak	.	FGF21	21	.	NM_019113	exon3	c.G371A	p.R124Q	GCTTCCGGGAGCT	.	PASS	Atlas-SNP
HRG	3273	hgsc.bcm.edu	37	3	186389559	186389559	+	Missense_Mutation	SNP	T	T	C	rs10770	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	69	151	0	0.420732	0	C|0.145;N|0.000	0.145	strong	.	HRG	81	.	NM_000412	exon4	c.T539C	p.I180T	ACCGAATCGAGAG	.	PASS	Atlas-SNP
SERPINB7	8710	hgsc.bcm.edu	37	18	61471662	61471662	+	Silent	SNP	G	G	T	rs34505921	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	42	83	0	0.617647	0	G|0.962;T|0.038	0.038	strong	SERPINB7,NS,malignant_melanoma,+1,1	SERPINB7	66	1	NM_001261830	exon8	c.G936T	p.S312S	TGCTTCGGGGGGT	.	PASS	Atlas-SNP
LRBA	987	hgsc.bcm.edu	37	4	151719263	151719263	+	Silent	SNP	A	A	G	rs1129998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	457	219	414	0	0.479212	0	A|0.839;G|0.161	0.161	strong	.	LRBA	253	.	NM_006726	exon34	c.T5550C	p.V1850V	TTCCACAACTGAA	.	PASS	Atlas-SNP
CRLS1	54675	hgsc.bcm.edu	37	20	6011934	6011934	+	Missense_Mutation	SNP	C	C	T	rs41282950	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	61	111	0	0.508333	0	C|0.908;T|0.092	0.092	strong	.	CRLS1	14	.	NM_019095	exon4	c.C578T	p.P193L	CAGTTCCACTTAC	.	PASS	Atlas-SNP
COQ10B	80219	hgsc.bcm.edu	37	2	198334871	198334871	+	Silent	SNP	A	A	C	rs140640160	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	329	165	308	0	0.50152	0	A|0.998;C|0.002	0.002	strong	.	COQ10B	18	.	NM_025147	exon4	c.A525C	p.P175P	CTACCCAAGAACT	.	PASS	Atlas-SNP
ZNF668	79759	hgsc.bcm.edu	37	16	31075175	31075175	+	Silent	SNP	G	G	A	rs2303223	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	41	83	1	0.561644	0.0120482	G|0.657;A|0.343	0.343	strong	ZNF668,NS,carcinoma,-2,1	ZNF668	121	1	NM_001172669	exon3	c.C675T	p.G225G	GGCTTTGCCGCAA	.	scavenged	Atlas-SNP
CACNB3	784	hgsc.bcm.edu	37	12	49221622	49221622	+	Silent	SNP	G	G	A	rs1045340	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	294	136	250	0	0.462585	0	G|0.568;A|0.432	0.432	strong	.	CACNB3	51	.	NM_000725	exon13	c.G1395A	p.E465E	CTCAGAGCACAAC	.	PASS	Atlas-SNP
GRWD1	83743	hgsc.bcm.edu	37	19	48949286	48949286	+	Silent	SNP	G	G	T	rs1643487	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	48	118	0	0.539326	0	G|0.256;T|0.744	0.744	strong	.	GRWD1	41	.	NM_031485	exon1	c.G24T	p.R8R	TCGGCGGCGCACG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	63	140	0	0.4375	0	C|0.706;T|0.294	0.294	strong	.	EPHA8	221	.	NM_020526	exon6	c.C1401T	p.N467N	GCCGAACGGCATC	.	PASS	Atlas-SNP
ADCY8	114	hgsc.bcm.edu	37	8	131922027	131922027	+	Silent	SNP	T	T	G	rs12545028	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	194	189	0	1	0	T|0.866;G|0.134	0.134	strong	.	ADCY8	291	.	NM_001115	exon6	c.A1567C	p.R523R	ACTTCCTTAGTCC	.	PASS	Atlas-SNP
LINS	55180	hgsc.bcm.edu	37	15	101110096	101110096	+	Missense_Mutation	SNP	T	T	C	rs12915007	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	66	111	0	0.515625	0	T|0.953;C|0.047	0.047	strong	.	LINS	62	.	NM_001040616	exon7	c.A1621G	p.I541V	TGCAAATGGTGAA	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29747417	29747417	+	Silent	SNP	C	C	T	rs1887465	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	71	89	0	0.63964	0	C|0.733;T|0.267	0.267	strong	.	SVIL	226	.	NM_021738	exon37	c.G6504A	p.P2168P	CCCCTCCGGGAGT	.	PASS	Atlas-SNP
KIAA0922	23240	hgsc.bcm.edu	37	4	154513722	154513722	+	Silent	SNP	C	C	T	rs7669741	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	25	79	0	0.403226	0	C|0.745;T|0.255	0.255	strong	KIAA0922,NS,carcinoma,0,1	KIAA0922	214	1	NM_001131007	exon18	c.C1908T	p.H636H	AGTGCACCTGCTC	.	PASS	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	37	1	86909493	86909493	+	Silent	SNP	C	C	T	rs2390059	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	29	78	0	0.5	0	T|0.113;G|0.000;C|0.887	0.113	strong	.	CLCA2	102	.	NM_006536	exon10	c.C1512T	p.V504V	AAATGTCAAACCT	.	PASS	Atlas-SNP
ATP13A2	23400	hgsc.bcm.edu	37	1	17312743	17312743	+	Missense_Mutation	SNP	C	C	T	rs3170740	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	33	89	0	0.66	0	C|0.645;T|0.355	0.355	strong	.	ATP13A2	85	.	NM_001141974	exon27	c.G3214A	p.A1072T	CAGCGGCGGCCAG	.	PASS	Atlas-SNP
KLHL25	64410	hgsc.bcm.edu	37	15	86311593	86311593	+	Silent	SNP	C	C	A	rs8041288	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	47	85	0	0.494737	0	C|0.909;A|0.091	0.091	strong	.	KLHL25	58	.	NM_022480	exon2	c.G1449T	p.R483R	TGTGTACCGCCAA	.	PASS	Atlas-SNP
C22orf28	51493	hgsc.bcm.edu	37	22	32808078	32808078	+	Silent	SNP	G	G	A	rs11545749	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	34	40	0	1	0	G|0.934;A|0.066	0.066	strong	.	C22orf28	43	.	NM_014306	exon1	c.C66T	p.I22I	CTTCTTGATCCTC	.	PASS	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	37	1	243329075	243329075	+	Silent	SNP	T	T	C	rs61833876	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	308	64	225	0	0.207792	0	T|0.500;C|0.500	0.500	weak	.	CEP170	153	.	NM_014812	exon13	c.A2187G	p.K729K	TTTCTCTTTTCCA	.	PASS	Atlas-SNP
CATSPER1	117144	hgsc.bcm.edu	37	11	65793797	65793797	+	Silent	SNP	G	G	A	rs1893316	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	49	99	0	0.494949	0	G|0.825;A|0.175	0.175	strong	.	CATSPER1	101	.	NM_053054	exon1	c.C54T	p.N18N	ATCTGCGTTATTG	.	PASS	Atlas-SNP
OR6F1	343169	hgsc.bcm.edu	37	1	247875313	247875313	+	Missense_Mutation	SNP	G	G	A	rs61730474	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	41	92	1	0.546667	0.0108696	G|0.991;A|0.009	0.009	strong	OR6F1,NS,carcinoma,+1,1	OR6F1	88	1	NM_001005286	exon1	c.C745T	p.L249F	AAATGAGCACCAC	.	scavenged	Atlas-SNP
SACS	26278	hgsc.bcm.edu	37	13	23908034	23908034	+	Silent	SNP	A	A	G	rs2737700	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	29	140	0	0.302083	0	A|0.664;G|0.336	0.336	strong	.	SACS	871	.	NM_014363	exon10	c.T9981C	p.A3327A	ACAGCCAGCTTTC	.	PASS	Atlas-SNP
DSG1	1828	hgsc.bcm.edu	37	18	28913599	28913599	+	Silent	SNP	C	C	T	rs12967407	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	40	165	1	0.27972	0.00606061	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
COL6A5	256076	hgsc.bcm.edu	37	3	130187817	130187817	+	Silent	SNP	T	T	C	rs322113	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	129	131	0	1	0	T|0.105;C|0.895	0.895	strong	.	COL6A5	205	.	NM_153264	exon38	c.T6969C	p.I2323I	TCACATTGCCCCC	.	PASS	Atlas-SNP
CLEC4M	10332	hgsc.bcm.edu	37	19	7831628	7831628	+	Missense_Mutation	SNP	G	G	A	rs2277998	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	65	182	0	0.414013	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
ADPRH	141	hgsc.bcm.edu	37	3	119301139	119301139	+	Silent	SNP	C	C	T	rs20568	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	94	164	0	0.458537	0	C|0.915;T|0.085	0.085	strong	.	ADPRH	33	.	NM_001125	exon3	c.C123T	p.G41G	GCTGGGCGGCTTG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32557497	32557497	+	Missense_Mutation	SNP	C	C	T	rs111934004	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	405	50	255	0	0.123457	0	C|0.500;T|0.500	0.500	weak	.	HLA-DRB1	41	.	NM_002124	exon1	c.G23A	p.G8E	GAGCCTCCAGGGA	.	PASS	Atlas-SNP
SCYL1	57410	hgsc.bcm.edu	37	11	65293819	65293819	+	Silent	SNP	G	G	A	rs75169347	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	44	119	0	0.4	0	G|0.968;A|0.032	0.032	strong	.	SCYL1	76	.	NM_020680	exon4	c.G600A	p.K200K	AGAGAAGTGGTGG	.	PASS	Atlas-SNP
ALDH4A1	8659	hgsc.bcm.edu	37	1	19201928	19201928	+	Missense_Mutation	SNP	C	C	T	rs2230709	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	66	145	0	0.445946	0	C|0.915;T|0.085	0.085	strong	.	ALDH4A1	72	.	NM_003748	exon13	c.G1408A	p.V470I	TGTCAACCAGCTG	.	PASS	Atlas-SNP
GCNT1	2650	hgsc.bcm.edu	37	9	79117751	79117751	+	Missense_Mutation	SNP	A	A	G	rs2282683	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	55	107	0	0.454545	0	A|0.773;G|0.227	0.227	strong	.	GCNT1	52	.	NM_001490	exon4	c.A454G	p.I152V	TATTGCATTCATG	.	PASS	Atlas-SNP
ATP13A2	23400	hgsc.bcm.edu	37	1	17313654	17313654	+	Silent	SNP	C	C	T	rs761421	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	30	46	0	0.731707	0	C|0.600;T|0.400	0.400	strong	.	ATP13A2	85	.	NM_022089	exon26	c.G2970A	p.V990V	TGGCCGCACCCGT	.	PASS	Atlas-SNP
CYB5R3	1727	hgsc.bcm.edu	37	22	43032811	43032811	+	Missense_Mutation	SNP	A	A	T	rs370253340		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	14	51	0	0.285714	0	.	.	weak	.	CYB5R3	31	.	NM_001171660	exon2	c.T162A	p.S54R	GAGCAGACTGTAC	.	PASS	Atlas-SNP
UBE2H	7328	hgsc.bcm.edu	37	7	129479138	129479138	+	Silent	SNP	T	T	C	rs12539800	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	79	135	0	0.481707	0	T|0.939;C|0.061	0.061	strong	.	UBE2H	17	.	NM_003344	exon6	c.A336G	p.L112L	GGCCAATAACTGA	.	PASS	Atlas-SNP
FBXL18	80028	hgsc.bcm.edu	37	7	5530954	5530954	+	Silent	SNP	G	G	A	rs11975313	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	37	75	0	0.569231	0	G|0.849;A|0.151	0.151	strong	.	FBXL18	99	.	NM_024963	exon4	c.C1908T	p.F636F	AGCCATGAAGGCC	.	PASS	Atlas-SNP
CHRNA9	55584	hgsc.bcm.edu	37	4	40337523	40337523	+	Silent	SNP	C	C	T	rs56241474	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	143	232	0	0.531599	0	C|0.721;T|0.279	0.279	strong	CHRNA9,NS,adenoma,0,1	CHRNA9	53	1	NM_017581	exon1	c.C39T	p.I13I	CTGGATCTACTTT	.	PASS	Atlas-SNP
PLBD1	79887	hgsc.bcm.edu	37	12	14664595	14664595	+	Silent	SNP	A	A	G	rs10846013	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	56	96	0	0.478632	0	A|0.734;G|0.266	0.266	strong	.	PLBD1	36	.	NM_024829	exon7	c.T895C	p.L299L	GCAGCAATATCAA	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43923180	43923180	+	Missense_Mutation	SNP	G	G	A	rs242944	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	66	65	0	0.985075	0	G|0.466;A|0.534	0.534	strong	.	.	.	.	NM_175882	exon1	c.G908A	p.R303H	TGTGCCGCCTGTC	.	PASS	Atlas-SNP
ZNF33B	7582	hgsc.bcm.edu	37	10	43089156	43089156	+	Silent	SNP	C	C	T	rs7904627	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	79	145	0	0.467456	0	C|0.852;T|0.148	0.148	strong	.	ZNF33B	78	.	NM_006955	exon5	c.G1242A	p.Q414Q	ATTACACTGATAG	.	PASS	Atlas-SNP
TRPC1	7220	hgsc.bcm.edu	37	3	142524858	142524858	+	Silent	SNP	G	G	A	rs1132030	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	60	177	0	0.387097	0	A|0.353;G|0.647;T|0.000	0.353	strong	.	TRPC1	82	.	NM_001251845	exon13	c.G2163A	p.R721R	ATGGAGGAATTTG	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220342004	220342004	+	Silent	SNP	G	G	A	rs45519033	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	20	58	0	0.425532	0	G|0.945;A|0.055	0.055	strong	.	SPEG	272	.	NM_005876	exon20	c.G4566A	p.E1522E	GGACGAGGTGCTG	.	PASS	Atlas-SNP
FDFT1	2222	hgsc.bcm.edu	37	8	11683622	11683622	+	Silent	SNP	T	T	C	rs2229247	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	83	197	0	0.471591	0	T|0.957;C|0.043	0.043	strong	.	FDFT1	25	.	NM_004462	exon5	c.T600C	p.D200D	TGAAGATACAGAA	.	PASS	Atlas-SNP
C10orf113	387638	hgsc.bcm.edu	37	10	21415006	21415006	+	Missense_Mutation	SNP	T	T	C	rs11591355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	54	100	0	0.529412	0	T|0.882;C|0.118	0.118	strong	.	C10orf113	32	.	NM_001010896	exon2	c.A214G	p.R72G	GCTTCCTGGGAGG	.	PASS	Atlas-SNP
SKAP2	8935	hgsc.bcm.edu	37	7	26765596	26765596	+	Missense_Mutation	SNP	C	C	A	rs1129771	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	19	27	0	0.678571	0	C|0.873;A|0.127	0.127	strong	.	SKAP2	40	.	NM_003930	exon8	c.G604T	p.A202S	GAGAAGCTGCTGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	317	152	300	0	0.479495	0	T|0.401;G|0.006	.	strong	.	SEMA3A	121	.	NM_006080	exon17	c.A2151G	p.T717T	ATCCATTGTGTTG	.	PASS	Atlas-SNP
OR6Q1	219952	hgsc.bcm.edu	37	11	57799183	57799183	+	Silent	SNP	C	C	T	rs7123727	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	185	179	0	0.994624	0	C|0.778;T|0.222	0.222	strong	.	OR6Q1	58	.	NM_001005186	exon1	c.C759T	p.S253S	GGTGAGCCTCTTC	.	PASS	Atlas-SNP
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45971152	45971152	+	Missense_Mutation	SNP	G	G	A	rs199607801	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	44	166	0	0.385965	0	G|0.978;A|0.022	0.022	strong	KRTAP10-2,colon,carcinoma,0,1	KRTAP10-2	21	1	NM_198693	exon1	c.C190T	p.P64S	CGCTGGGCTCACA	.	scavenged	Atlas-SNP
KRTAP5-10	387273	hgsc.bcm.edu	37	11	71277083	71277083	+	Silent	SNP	C	C	T	rs146926834	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	285	147	279	0	0.515789	0	C|0.959;T|0.041	0.041	strong	.	KRTAP5-10	37	.	NM_001012710	exon1	c.C450T	p.C150C	CTGCTGCTCCTCA	.	PASS	Atlas-SNP
CYP11B1	1584	hgsc.bcm.edu	37	8	143956706	143956706	+	Silent	SNP	G	G	A	rs5293	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	16	73	0	0.146789	0	G|0.903;A|0.097	0.097	strong	CYP11B1,NS,carcinoma,0,1	CYP11B1	128	1	NM_000497	exon7	c.C1144T	p.L382L	GCTCCAGAAACAG	.	scavenged	Atlas-SNP
IGSF5	150084	hgsc.bcm.edu	37	21	41142940	41142940	+	Silent	SNP	G	G	A	rs2837200	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	61	45	0	1	0	G|0.803;A|0.197	0.197	strong	.	IGSF5	62	.	NM_001080444	exon4	c.G516A	p.P172P	GCTCCCGGATATT	.	PASS	Atlas-SNP
FANCI	55215	hgsc.bcm.edu	37	15	89838318	89838318	+	Missense_Mutation	SNP	A	A	T	rs35875311	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	29	75	0	0.426471	0	A|0.931;T|0.069	0.069	strong	.	FANCI	129	.	NM_001113378	exon24	c.A2629T	p.I877L	TGTGACATAACTC	.	PASS	Atlas-SNP
TCP10L2	401285	hgsc.bcm.edu	37	6	167592524	167592524	+	Missense_Mutation	SNP	T	T	C	rs77127438	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	48	113	0	0.440367	0	.	.	weak	.	TCP10L2	41	.	NM_001145121	exon6	c.T683C	p.L228P	GAAGTCTGCAAAA	.	PASS	Atlas-SNP
TTC21A	199223	hgsc.bcm.edu	37	3	39161456	39161456	+	Missense_Mutation	SNP	G	G	A	rs1274972	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	86	192	0	0.530864	0	G|0.555;A|0.445	0.445	strong	.	TTC21A	96	.	NM_145755	exon8	c.G869A	p.R290K	AGACAAGGGAACC	.	PASS	Atlas-SNP
CDH6	1004	hgsc.bcm.edu	37	5	31294254	31294254	+	Silent	SNP	C	C	T	rs147617483	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	55	88	0	0.514019	0	C|0.995;T|0.005	0.005	strong	.	CDH6	175	.	NM_004932	exon3	c.C414T	p.P138P	GAGACCCGTGGAG	.	PASS	Atlas-SNP
NPAP1	23742	hgsc.bcm.edu	37	15	24921771	24921771	+	Missense_Mutation	SNP	G	G	C	rs1563102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	45	100	0	0.535714	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
USP49	25862	hgsc.bcm.edu	37	6	41773576	41773576	+	Silent	SNP	G	G	C	rs2185798	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	133	82	0	1	0	G|0.480;C|0.520	0.520	strong	.	USP49	58	.	NM_018561	exon4	c.C1146G	p.L382L	TGAGTGGAGCATG	.	PASS	Atlas-SNP
WDR73	84942	hgsc.bcm.edu	37	15	85189464	85189464	+	Silent	SNP	T	T	G	rs2271431	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	21	48	0	0.42	0	T|0.830;G|0.170	0.170	strong	.	WDR73	15	.	NM_032856	exon6	c.A468C	p.R156R	CAGACTTCGGAGC	.	PASS	Atlas-SNP
OR1I1	126370	hgsc.bcm.edu	37	19	15198441	15198441	+	Missense_Mutation	SNP	G	G	T	rs73008811	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	88	212	0	0.56051	0	G|0.866;T|0.134	0.134	strong	.	OR1I1	58	.	NM_001004713	exon1	c.G565T	p.G189C	CTCTCCGGCTCAG	.	PASS	Atlas-SNP
PLSCR4	57088	hgsc.bcm.edu	37	3	145938619	145938619	+	Missense_Mutation	SNP	T	T	C	rs3762685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	74	137	0	0.4625	0	T|0.671;C|0.329	0.329	strong	.	PLSCR4	44	.	NM_020353	exon3	c.A101G	p.N34S	TGAGAATTGTATT	.	PASS	Atlas-SNP
NUP54	53371	hgsc.bcm.edu	37	4	77055474	77055474	+	Silent	SNP	A	A	G	rs11097244	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	42	108	0	0.47191	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
ZNF382	84911	hgsc.bcm.edu	37	19	37118439	37118439	+	Missense_Mutation	SNP	C	C	T	rs61732180	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	60	135	0	0.451128	0	C|0.845;T|0.155	0.155	strong	.	ZNF382	87	.	NM_032825	exon5	c.C1640T	p.T547M	AAACCACGGGAAT	.	PASS	Atlas-SNP
UGT2B4	7363	hgsc.bcm.edu	37	4	70361334	70361334	+	Silent	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	24	136	0	0.167832	0	.	.	none	.	UGT2B4	105	.	NM_021139	exon1	c.T246G	p.T82T	AGTTTTAGTTAAA	.	PASS	Atlas-SNP
C18orf8	29919	hgsc.bcm.edu	37	18	21100240	21100240	+	Silent	SNP	C	C	T	rs1367083	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	48	164	0	0.363636	0	T|0.538;G|0.000;C|0.462;A|0.000	0.538	strong	.	C18orf8	58	.	NM_013326	exon10	c.C924T	p.P308P	GCTTCCCGCTCGA	.	PASS	Atlas-SNP
MEGF6	1953	hgsc.bcm.edu	37	1	3425183	3425183	+	Silent	SNP	G	G	A	rs61735125	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	322	175	340	1	0.543478	0.00294118	G|0.940;A|0.060	0.060	strong	.	MEGF6	91	.	NM_001409	exon13	c.C1599T	p.C533C	CAGGAGGCAGGTC	.	PASS	Atlas-SNP
APBB3	10307	hgsc.bcm.edu	37	5	139940233	139940233	+	Silent	SNP	G	G	A	rs250431	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	53	119	0	0.417323	0	G|0.389;A|0.611	0.611	strong	APBB3,NS,carcinoma,-1,1	APBB3	34	1	NM_006051	exon10	c.C1044T	p.H348H	AATGGGGTGTGCA	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52888245	52888245	+	Missense_Mutation	SNP	A	A	G	rs55748277	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	45	95	0	0.523256	0	A|0.631;G|0.369	0.369	strong	.	ZNF880	45	.	NM_001145434	exon4	c.A1412G	p.K471R	GTGGCAAGGACTT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	72	140	0	0.458599	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
DNAH17	8632	hgsc.bcm.edu	37	17	76423151	76423151	+	Silent	SNP	C	C	T	rs3209030	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	43	108	0	0.380531	0	C|0.914;T|0.086	0.086	strong	.	DNAH17	347	.	NM_173628	exon78	c.G12627A	p.P4209P	AGTCTCCGGAATC	.	PASS	Atlas-SNP
MED12	9968	hgsc.bcm.edu	37	X	70354254	70354254	+	Silent	SNP	G	G	A	rs375001801		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	92	166	0	1	0	.	.	weak	.	MED12	984	.	NM_005120	exon34	c.G4665A	p.T1555T	GACCACGGAGTGG	.	PASS	Atlas-SNP
ATP13A2	23400	hgsc.bcm.edu	37	1	17313343	17313343	+	Silent	SNP	G	G	A	rs9435659	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	50	104	0	0.694444	0	G|0.606;A|0.394	0.394	strong	.	ATP13A2	85	.	NM_022089	exon27	c.C3192T	p.A1064A	GGACACGGCTGCA	.	PASS	Atlas-SNP
TFAP2C	7022	hgsc.bcm.edu	37	20	55209257	55209257	+	Silent	SNP	T	T	C	rs35023929	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	48	106	0	0.457143	0	T|0.892;C|0.108	0.108	strong	.	TFAP2C	51	.	NM_003222	exon5	c.T855C	p.I285I	CAAGATTGGGTTG	.	PASS	Atlas-SNP
KIRREL3	84623	hgsc.bcm.edu	37	11	126391297	126391297	+	Silent	SNP	T	T	G	rs12269776	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	85	149	0	0.544872	0	T|0.764;G|0.236	0.236	strong	.	KIRREL3	183	.	NM_032531	exon4	c.A346C	p.R116R	CTGCCCTCAGGAT	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1062285	1062285	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	10	60	0	0.192308	0	.	.	none	.	ABCA7	174	.	NM_019112	exon42	c.C5685T	p.R1895R	CCTGCGCGGTGTC	.	PASS	Atlas-SNP
TAF1L	138474	hgsc.bcm.edu	37	9	32630472	32630472	+	Silent	SNP	T	T	C	rs10758145	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306	170	283	1	0.555556	0.00353357	T|0.672;C|0.328	0.328	strong	.	TAF1L	382	.	NM_153809	exon1	c.A5106G	p.K1702K	CATCTGTTTTTCT	.	PASS	Atlas-SNP
HMHA1	23526	hgsc.bcm.edu	37	19	1068738	1068738	+	Missense_Mutation	SNP	G	G	A	rs1801284	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	71	194	0	0.353234	0	G|0.602;A|0.398	0.398	strong	HMHA1,colon,carcinoma,+1,1	HMHA1	78	1	NM_001258328	exon2	c.G464A	p.R155H	TGTTGCGTGACGG	.	PASS	Atlas-SNP
MLIP	90523	hgsc.bcm.edu	37	6	53989526	53989526	+	Missense_Mutation	SNP	G	G	A	rs4712056	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	35	55	0	0.614035	0	G|0.398;A|0.602	0.602	strong	.	MLIP	84	.	NM_138569	exon3	c.G475A	p.V159I	GCAGCTGTCCGGC	.	PASS	Atlas-SNP
SIM1	6492	hgsc.bcm.edu	37	6	100868779	100868779	+	Missense_Mutation	SNP	G	G	T	rs3734354	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	93	203	0	0.584906	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
KLF17	128209	hgsc.bcm.edu	37	1	44595047	44595047	+	Missense_Mutation	SNP	T	T	A	rs11210969	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	44	121	0	0.4	0	T|0.767;A|0.233	0.233	strong	KLF17,NS,carcinoma,0,1	KLF17	92	1	NM_173484	exon2	c.T104A	p.I35N	CGCCCATCTTGAA	.	PASS	Atlas-SNP
NIN	51199	hgsc.bcm.edu	37	14	51224417	51224417	+	Missense_Mutation	SNP	G	G	C	rs2236316	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	84	170	0	0.464088	0	G|0.805;C|0.195	0.195	strong	.	NIN	475	.	NM_020921	exon18	c.C3331G	p.P1111A	TAGCTGGCTCATC	.	PASS	Atlas-SNP
ADAR	103	hgsc.bcm.edu	37	1	154560614	154560614	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	39	72	0	0.433333	0	.	.	none	.	ADAR	113	.	NM_001111	exon11	c.C3006T	p.T1002T	CACCTTGGTGCGG	.	PASS	Atlas-SNP
IZUMO1	284359	hgsc.bcm.edu	37	19	49244260	49244260	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	4	79	0	0.0425532	0	.	.	none	.	IZUMO1	30	.	NM_182575	exon10	c.G958A	p.D320N	TGAAATCGATCAC	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147481430	147481430	+	Silent	SNP	A	A	G	rs6896303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	124	116	0	0.96875	0	A|0.545;G|0.455	0.455	strong	SPINK5,NS,carcinoma,0,1	SPINK5	245	1	NM_001127699	exon15	c.A1389G	p.G463G	AGATGGAAAAATG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	52	81	0	0.472727	0	G|0.574;A|0.426	0.426	strong	.	DNAH5	868	.	NM_001369	exon38	c.C6264T	p.A2088A	CCGTCCGGCATAG	.	PASS	Atlas-SNP
SLAMF9	89886	hgsc.bcm.edu	37	1	159923904	159923904	+	Silent	SNP	A	A	C	rs145274502	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	47	108	0	0.419643	0	A|0.977;C|0.023	0.023	strong	.	SLAMF9	41	.	NM_033438	exon1	c.T24G	p.L8L	GAGAAGAAGCAGC	.	PASS	Atlas-SNP
NOP9	161424	hgsc.bcm.edu	37	14	24771285	24771285	+	Missense_Mutation	SNP	G	G	A	rs4280164	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	91	153	0	0.572327	0	G|0.835;A|0.165	0.165	strong	.	.	.	.	NM_174913	exon4	c.G923A	p.S308N	ACCTGAGTACTCG	.	PASS	Atlas-SNP
MASP1	5648	hgsc.bcm.edu	37	3	186953808	186953808	+	Silent	SNP	C	C	T	rs850312	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	90	71	0	1	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
F13A1	2162	hgsc.bcm.edu	37	6	6152137	6152137	+	Missense_Mutation	SNP	C	C	G	rs5988	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	84	84	0	0.575342	0	C|0.786;G|0.214	0.214	strong	.	F13A1	135	.	NM_000129	exon14	c.G1954C	p.E652Q	TAAACTCAACTGT	.	PASS	Atlas-SNP
FAM209B	388799	hgsc.bcm.edu	37	20	55108508	55108508	+	Silent	SNP	G	G	A	rs150517677	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	26	294	0	0.143646	0	G|0.985;A|0.015	0.015	strong	.	.	.	.	NM_001013646	exon1	c.G111A	p.P37P	GGTGCCGTGTGGA	.	PASS	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50405502	50405502	+	Silent	SNP	C	C	G	rs17802735	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	63	111	0	0.488372	0	C|0.916;G|0.084	0.084	strong	.	SALL4	168	.	NM_020436	exon3	c.G2640C	p.S880S	AGCAGACGAGAAG	.	PASS	Atlas-SNP
SLC35E1	79939	hgsc.bcm.edu	37	19	16666101	16666101	+	Silent	SNP	G	G	C	rs2287869	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	35	113	0	0.357143	0	G|0.568;C|0.432	0.432	strong	.	SLC35E1	48	.	NM_024881	exon5	c.C864G	p.P288P	GCTCAGGGGGCTA	.	PASS	Atlas-SNP
RNF141	50862	hgsc.bcm.edu	37	11	10555589	10555589	+	Silent	SNP	A	A	G	rs1065052	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	57	96	0	0.463415	0	A|0.658;G|0.342	0.342	strong	.	RNF141	16	.	NM_016422	exon2	c.T117C	p.L39L	TCTCCCAAGAAAT	.	PASS	Atlas-SNP
HNRPLL	92906	hgsc.bcm.edu	37	2	38829737	38829737	+	Missense_Mutation	SNP	G	G	A	rs34376380	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	8	25	0	0.533333	0	G|0.983;A|0.017	0.017	strong	.	HNRPLL	19	.	NM_138394	exon1	c.C32T	p.T11M	TCGTACGTCTCCC	.	PASS	Atlas-SNP
A4GALT	53947	hgsc.bcm.edu	37	22	43089849	43089849	+	Missense_Mutation	SNP	T	T	C	rs11541159	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	67	131	0	0.57265	0	T|0.620;C|0.380	0.380	strong	.	A4GALT	35	.	NM_017436	exon3	c.A109G	p.M37V	AGATCATGATGGA	.	PASS	Atlas-SNP
LILRB1	10859	hgsc.bcm.edu	37	19	55143083	55143083	+	Missense_Mutation	SNP	T	T	C	rs1061679	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	319	155	287	0	0.485893	0	T|0.545;C|0.455	0.455	strong	.	LILRB1	140	.	NM_001081637	exon4	c.T203C	p.L68P	CAGCACTCTGGAT	.	PASS	Atlas-SNP
HTR3D	200909	hgsc.bcm.edu	37	3	183756742	183756742	+	Silent	SNP	C	C	T	rs55674402	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306	111	219	0	0.362745	0	C|0.658;T|0.342	0.342	strong	HTR3D,NS,carcinoma,0,1	HTR3D	65	1	NM_001163646	exon8	c.C1344T	p.V448V	CACCGTCATATGC	.	PASS	Atlas-SNP
FEZ1	9638	hgsc.bcm.edu	37	11	125351472	125351472	+	Missense_Mutation	SNP	A	A	T	rs597570	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	99	141	0	0.575581	0	A|0.805;T|0.195	0.195	strong	.	FEZ1	47	.	NM_005103	exon3	c.T369A	p.D123E	GTTTGGATCCCTC	.	PASS	Atlas-SNP
ATRNL1	26033	hgsc.bcm.edu	37	10	117486763	117486763	+	Silent	SNP	G	G	T	rs2254619	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	41	27	0	0.97619	0	G|0.735;T|0.265	0.265	strong	.	ATRNL1	219	.	NM_207303	exon27	c.G3801T	p.L1267L	GCAACTGCTTCGA	.	PASS	Atlas-SNP
PLSCR4	57088	hgsc.bcm.edu	37	3	145917761	145917761	+	Missense_Mutation	SNP	T	T	C	rs1061409	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	74	164	0	0.474359	0	T|0.734;C|0.266	0.266	strong	.	PLSCR4	44	.	NM_020353	exon6	c.A463G	p.I155V	TTACAATGTAAAC	.	PASS	Atlas-SNP
DTNBP1	84062	hgsc.bcm.edu	37	6	15524698	15524698	+	Silent	SNP	T	T	C	rs16876573	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	257	256	173	1	0.996109	0.00578035	T|0.966;C|0.034	0.034	strong	.	DTNBP1	56	.	NM_183040	exon9	c.A870G	p.P290P	CACCTTTGGAGGG	.	PASS	Atlas-SNP
RNF139	11236	hgsc.bcm.edu	37	8	125499363	125499363	+	Silent	SNP	G	G	A	rs72713066	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	58	86	0	0.585859	0	G|0.919;A|0.081	0.081	strong	.	RNF139	57	.	NM_007218	exon2	c.G1473A	p.S491S	TGAGTCGGGAAGT	.	PASS	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130780015	130780015	+	Silent	SNP	C	C	T	rs1781	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	104	96	0	1	0	C|0.454;T|0.546	0.546	strong	.	SNX19	84	.	NM_014758	exon4	c.G1932A	p.P644P	GATCTCCGGAATG	.	PASS	Atlas-SNP
DHX34	9704	hgsc.bcm.edu	37	19	47883086	47883086	+	Silent	SNP	T	T	G	rs28522883	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	24	89	0	0.387097	0	T|0.878;G|0.122	0.122	strong	.	DHX34	98	.	NM_014681	exon14	c.T2826G	p.A942A	GGCGGCTTCCCTG	.	PASS	Atlas-SNP
ATP9B	374868	hgsc.bcm.edu	37	18	76873288	76873288	+	Silent	SNP	A	A	G	rs34331564	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	40	114	0	0.338983	0	A|0.930;G|0.070	0.070	strong	ATP9B,NS,carcinoma,0,1	ATP9B	96	1	NM_198531	exon4	c.A492G	p.V164V	TCTAGTAATATCC	.	PASS	Atlas-SNP
TMEM8A	58986	hgsc.bcm.edu	37	16	426432	426432	+	Missense_Mutation	SNP	T	T	C	rs2071915	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	63	89	0	1	0	C|0.542;N|0.001	0.542	strong	.	TMEM8A	49	.	NM_021259	exon6	c.A928G	p.I310V	GCTGGATGGTCAC	.	PASS	Atlas-SNP
MCAT	27349	hgsc.bcm.edu	37	22	43529314	43529314	+	Missense_Mutation	SNP	G	G	C	rs13815	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	104	129	0	1	0	G|0.474;C|0.526	0.526	strong	MCAT,NS,carcinoma,-1,1	MCAT	26	1	NM_173467	exon4	c.C908G	p.A303G	CTATGCGCGTGGA	.	PASS	Atlas-SNP
SYN1	6853	hgsc.bcm.edu	37	X	47466361	47466361	+	Silent	SNP	A	A	G	rs1142636	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	102	216	0	0.980769	0	T|0.141;G|0.294;C|0.097;A|0.468	0.294	strong	.	SYN1	84	.	NM_006950	exon3	c.T510C	p.N170N	CACCCCATTCCGA	.	PASS	Atlas-SNP
CASS4	57091	hgsc.bcm.edu	37	20	55033635	55033635	+	Silent	SNP	C	C	T	rs3746624	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	52	89	0	0.477064	0	C|0.699;T|0.301	0.301	strong	.	CASS4	121	.	NM_020356	exon6	c.C2193T	p.N731N	GCGCAACGAGATC	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38121152	38121152	+	Missense_Mutation	SNP	C	C	A	rs9610841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	187	201	0	0.989418	0	C|0.623;A|0.377	0.377	strong	TRIOBP_ENST00000344404,NS,carcinoma,+1,1	TRIOBP	262	1	NM_001039141	exon7	c.C2589A	p.N863K	AGACAACCCTGGA	.	PASS	Atlas-SNP
TTC37	9652	hgsc.bcm.edu	37	5	94882781	94882781	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	35	103	0	0.416667	0	.	.	none	.	TTC37	128	.	NM_014639	exon4	c.C74T	p.A25V	TTCAAAGCTTCTT	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	90151589	90151589	+	Missense_Mutation	SNP	G	G	A	rs2247870	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	285	132	250	0	0.463158	0	G|0.534;A|0.466	0.466	strong	GPR98,NS,carcinoma,0,1	GPR98	605	1	NM_032119	exon82	c.G17626A	p.V5876I	AAAGTGGTTGAGG	.	PASS	Atlas-SNP
OR2AK2	391191	hgsc.bcm.edu	37	1	248129304	248129304	+	Missense_Mutation	SNP	T	T	C	rs143777155	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	77	179	0	0.513333	0	T|0.998;C|0.002	0.002	strong	.	OR2AK2	90	.	NM_001004491	exon1	c.T671C	p.L224P	TGCTACTACCATT	.	PASS	Atlas-SNP
APBB2	323	hgsc.bcm.edu	37	4	41015899	41015899	+	Missense_Mutation	SNP	C	C	T	rs4861358	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	157	132	0	1	0	C|0.308;T|0.692	0.692	strong	.	APBB2	61	.	NM_173075	exon6	c.G536A	p.R179Q	TTGCCTCGGTTCT	.	PASS	Atlas-SNP
FAM169B	283777	hgsc.bcm.edu	37	15	99023968	99023968	+	Silent	SNP	T	T	G	rs4528551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	39	83	0	0.414894	0	T|0.666;G|0.334	0.334	strong	.	FAM169B	23	.	NM_182562	exon4	c.A45C	p.L15L	GGCGTTTAGAATG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	190	191	0	1	0	T|0.422;C|0.578	0.578	strong	.	ABCA1	244	.	NM_005502	exon35	c.A4760G	p.K1587R	TTATTTTTGGTGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	45	89	0	0.473684	0	A|0.748;G|0.252	0.252	strong	.	OR9G4	73	.	NM_001005284	exon1	c.T665C	p.V222A	GAGAGTACTGTGA	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4153824	4153824	+	Silent	SNP	A	A	G	rs2141076	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	71	133	0	0.563492	0	A|0.851;G|0.149	0.149	strong	.	SDK1	361	.	NM_152744	exon25	c.A3741G	p.E1247E	GATGGAATACGAG	.	PASS	Atlas-SNP
PTPRH	5794	hgsc.bcm.edu	37	19	55715309	55715309	+	Missense_Mutation	SNP	C	C	T	rs45535035	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	103	241	0	0.495192	0	C|0.840;T|0.160	0.160	strong	.	PTPRH	139	.	NM_002842	exon5	c.G727A	p.V243I	ACTGAACGCAGTA	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145293469	145293469	+	Missense_Mutation	SNP	G	G	C	rs6671324	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	13	167	0	0.0653266	0	.	.	weak	.	NBPF10	221	.	NM_001039703	exon1	c.G64C	p.E22Q	ATCAACGAGACAT	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177901658	177901658	+	Silent	SNP	C	C	T	rs7554597	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	92	111	0	0.567901	0	C|0.785;T|0.215	0.215	strong	.	SEC16B	92	.	NM_033127	exon24	c.G2979A	p.A993A	AGCGCCCGCAGCT	.	PASS	Atlas-SNP
ZNF765	91661	hgsc.bcm.edu	37	19	53911510	53911510	+	Silent	SNP	G	G	A	rs8182488	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	88	213	0	0.427184	0	G|0.796;A|0.204	0.204	strong	.	ZNF765	61	.	NM_001040185	exon4	c.G702A	p.Q234Q	ACATCAGTTAATC	.	PASS	Atlas-SNP
SHCBP1	79801	hgsc.bcm.edu	37	16	46652188	46652188	+	Missense_Mutation	SNP	A	A	G	rs146004470	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	92	187	0	0.511111	0	A|0.999;G|0.001	0.001	strong	.	SHCBP1	54	.	NM_024745	exon2	c.T200C	p.F67S	TCTGGGAAAAAGG	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239108	31239108	+	Missense_Mutation	SNP	T	T	A	rs1131118	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	36	163	0	0.423529	0	T|0.768;A|0.232	0.232	strong	HLA-C_ENST00000383329,NS,carcinoma,0,2	HLA-C	92	2	NM_002117	exon3	c.A361T	p.R121W	ACATCCTCTGGAG	.	PASS	Atlas-SNP
C3orf30	152405	hgsc.bcm.edu	37	3	118865609	118865609	+	Silent	SNP	C	C	T	rs10934483	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	50	108	0	0.480769	0	C|0.855;T|0.145	0.145	strong	C3orf30,rectum,carcinoma,0,1	C3orf30	64	1	NM_152539	exon1	c.C573T	p.S191S	AGCTTCCGAGCAG	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50589196	50589196	+	Silent	SNP	C	C	A	rs2294396	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	42	130	0	0.33871	0	C|0.878;A|0.122	0.122	strong	.	MOV10L1	238	.	NM_018995	exon21	c.C2760A	p.G920G	GCTCGGCCCAGTC	.	PASS	Atlas-SNP
IGSF22	283284	hgsc.bcm.edu	37	11	18743180	18743180	+	Missense_Mutation	SNP	C	C	G	rs10832975	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	59	136	0	0.468254	0	C|0.636;G|0.364	0.364	strong	IGSF22_ENST00000513874,NS,carcinoma,0,2	IGSF22	211	2	NM_173588	exon4	c.G280C	p.A94P	GTTTGGCGTTCCC	.	PASS	Atlas-SNP
TFB2M	64216	hgsc.bcm.edu	37	1	246707858	246707858	+	Silent	SNP	A	A	G	rs3129568	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	44	123	0	0.427184	0	A|0.783;G|0.217	0.217	strong	.	TFB2M	46	.	NM_022366	exon7	c.T984C	p.F328F	CCTCCCAAAACAG	.	PASS	Atlas-SNP
POM121L12	285877	hgsc.bcm.edu	37	7	53103571	53103571	+	Silent	SNP	G	G	A	rs11238248	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	15	50	0	0.416667	0	G|0.585;A|0.415	0.415	strong	.	POM121L12	146	.	NM_182595	exon1	c.G207A	p.G69G	GTGGGGGCGCCCG	.	PASS	Atlas-SNP
ALDH1A2	8854	hgsc.bcm.edu	37	15	58256127	58256127	+	Missense_Mutation	SNP	C	C	T	rs4646626	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	153	120	0	1	0	C|0.566;T|0.434	0.434	strong	.	ALDH1A2	69	.	NM_003888	exon9	c.G1042A	p.V348I	CCACTACGCGCCT	.	PASS	Atlas-SNP
WDYHV1	55093	hgsc.bcm.edu	37	8	124440260	124440260	+	Silent	SNP	G	G	A	rs10505435	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	19	42	0	0.5	0	G|0.989;A|0.011	0.011	strong	.	WDYHV1	30	.	NM_018024	exon2	c.G180A	p.K60K	GAGGAAGATGGTA	.	PASS	Atlas-SNP
BICD1	636	hgsc.bcm.edu	37	12	32458756	32458756	+	Silent	SNP	C	C	T	rs11051922	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	28	69	0	0.538462	0	C|0.988;T|0.012	0.012	strong	.	BICD1	89	.	NM_001714	exon4	c.C705T	p.L235L	AGCCCTCGAGACT	.	PASS	Atlas-SNP
GPR152	390212	hgsc.bcm.edu	37	11	67218787	67218787	+	Missense_Mutation	SNP	G	G	A	rs137906019	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	30	45	0	0.576923	0	G|0.998;A|0.002	0.002	strong	.	GPR152	41	.	NM_206997	exon1	c.C1409T	p.T470M	CCTCACGTGGGGC	.	PASS	Atlas-SNP
DOK7	285489	hgsc.bcm.edu	37	4	3494898	3494898	+	Silent	SNP	C	C	T	rs6850908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	29	77	0	0.58	0	C|0.794;T|0.206	0.206	strong	DOK7,NS,carcinoma,0,1	DOK7	44	1	NM_173660	exon7	c.C1185T	p.Y395Y	CGAGTACCAGGTG	.	PASS	Atlas-SNP
PFKFB2	5208	hgsc.bcm.edu	37	1	207238419	207238419	+	Silent	SNP	C	C	T	rs72741390	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	89	122	0	0.593333	0	C|0.815;T|0.185	0.185	strong	.	PFKFB2	70	.	NM_001018053	exon8	c.C546T	p.N182N	AAGGAACAGAGAG	.	PASS	Atlas-SNP
CAPN9	10753	hgsc.bcm.edu	37	1	230923313	230923313	+	Missense_Mutation	SNP	C	C	T	rs12731961	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	62	155	0	0.452555	0	C|0.793;T|0.207	0.207	strong	.	CAPN9	116	.	NM_006615	exon13	c.C1564T	p.R522W	GAGCAGCGGTTTC	.	PASS	Atlas-SNP
ICAM1	3383	hgsc.bcm.edu	37	19	10394792	10394792	+	Missense_Mutation	SNP	G	G	A	rs1799969	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	33	81	0	0.428571	0	G|0.927;A|0.073	0.073	strong	.	ICAM1	32	.	NM_000201	exon4	c.G721A	p.G241R	CTGGACGGGCTGT	.	PASS	Atlas-SNP
MEST	4232	hgsc.bcm.edu	37	7	130140729	130140729	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	46	79	0	0.484211	0	.	.	none	.	MEST	28	.	NM_002402	exon9	c.C747T	p.D249D	CATTGACAGGTAA	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1418210	1418210	+	Silent	SNP	G	G	A	rs28909989	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	53	184	1	0.375887	0.00543478	G|0.996;A|0.004	0.004	strong	TPO,NS,carcinoma,+1,1	TPO	224	1	NM_175719	exon2	c.G30A	p.T10T	TGTCACGCTGGTT	.	scavenged	Atlas-SNP
SLC52A1	55065	hgsc.bcm.edu	37	17	4936972	4936972	+	Missense_Mutation	SNP	G	G	A	rs346821	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	45	94	0	0.478723	0	G|0.356;A|0.644	0.644	strong	.	.	.	.	NM_017986	exon3	c.C812T	p.A271V	TGATGGGCCTCAG	.	PASS	Atlas-SNP
MLF1IP	79682	hgsc.bcm.edu	37	4	185637699	185637699	+	Missense_Mutation	SNP	A	A	G	rs6552804	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	363	154	233	0	0.424242	0	A|0.825;G|0.175	0.175	strong	.	MLF1IP	33	.	NM_024629	exon6	c.T470C	p.I157T	GTACTTATTTTCT	.	PASS	Atlas-SNP
FAM222A	84915	hgsc.bcm.edu	37	12	110206760	110206760	+	Silent	SNP	C	C	A	rs79456911	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	10	20	0	0.47619	0	C|0.994;A|0.006	0.006	strong	.	.	.	.	NM_032829	exon3	c.C1026A	p.G342G	CGTAGGCCAGTAC	.	PASS	Atlas-SNP
ZNF502	91392	hgsc.bcm.edu	37	3	44762830	44762830	+	Missense_Mutation	SNP	A	A	G	rs56084453	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	50	112	0	0.403226	0	A|0.848;G|0.152	0.152	strong	ZNF502,NS,carcinoma,-1,1	ZNF502	58	1	NM_001134440	exon4	c.A521G	p.Q174R	AACATCAGAGAAC	.	PASS	Atlas-SNP
TMEM2	23670	hgsc.bcm.edu	37	9	74344821	74344821	+	Silent	SNP	T	T	C	rs25693	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	71	165	0	0.435583	0	T|0.937;C|0.063	0.063	strong	.	TMEM2	112	.	NM_013390	exon10	c.A1989G	p.S663S	GAAAGTTGAAACA	.	PASS	Atlas-SNP
LPIN1	23175	hgsc.bcm.edu	37	2	11911761	11911761	+	Silent	SNP	C	C	T	rs11538448	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	88	224	0	0.458333	0	C|0.912;T|0.088	0.088	strong	.	LPIN1	99	.	NM_001261428	exon5	c.C699T	p.I233I	CCCCATCGAGATG	.	PASS	Atlas-SNP
LDHAL6B	92483	hgsc.bcm.edu	37	15	59499179	59499179	+	Missense_Mutation	SNP	G	G	A	rs3809530	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	77	147	0	0.48125	0	G|0.690;A|0.310	0.310	strong	.	LDHAL6B	30	.	NM_033195	exon1	c.G40A	p.V14M	CAGAGAGTGAGCT	.	PASS	Atlas-SNP
FMN1	342184	hgsc.bcm.edu	37	15	33260973	33260973	+	Missense_Mutation	SNP	C	C	T	rs150962800	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	324	164	270	0	0.506173	0	C|0.987;T|0.013	0.013	strong	.	FMN1	174	.	NM_001103184	exon4	c.G2260A	p.E754K	TGGGCTCGATGGC	.	PASS	Atlas-SNP
NKAIN4	128414	hgsc.bcm.edu	37	20	61880169	61880169	+	Missense_Mutation	SNP	T	T	G	rs1129659	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	21	42	0	0.411765	0	T|0.594;G|0.406	0.406	strong	NKAIN4,NS,carcinoma,0,1	NKAIN4	23	1	NM_152864	exon3	c.A271C	p.K91Q	TCACCTTTAAGAG	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7889941	7889941	+	Silent	SNP	C	C	T	rs2640908	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	64	211	0	0.395062	0	C|0.736;T|0.264	0.264	strong	.	PER3	95	.	NM_016831	exon18	c.C2907T	p.T969T	TACTACCGGTGCA	.	PASS	Atlas-SNP
TNKS2	80351	hgsc.bcm.edu	37	10	93608142	93608142	+	Silent	SNP	G	G	A	rs3758499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	40	77	0	0.38835	0	G|0.687;A|0.313	0.313	strong	.	TNKS2	103	.	NM_025235	exon19	c.G2361A	p.A787A	CTAGGCGGATGAT	.	PASS	Atlas-SNP
SERPINF2	5345	hgsc.bcm.edu	37	17	1649022	1649022	+	Silent	SNP	C	C	T	rs35259159	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	46	65	0	0.522727	0	C|0.960;T|0.040	0.040	strong	.	SERPINF2	33	.	NM_000934	exon5	c.C186T	p.A62A	GACTGCCCTGAAG	.	PASS	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	37	13	25267017	25267017	+	Missense_Mutation	SNP	A	A	C	rs56291145	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	28	84	0	0.405797	0	A|0.975;C|0.025	0.025	strong	.	ATP12A	172	.	NM_001185085	exon10	c.A1378C	p.N460H	CAGGAAAATGTCC	.	PASS	Atlas-SNP
OR51I2	390064	hgsc.bcm.edu	37	11	5475597	5475597	+	Silent	SNP	C	C	T	rs11037503	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	78	73	0	0.962963	0	C|0.757;T|0.243	0.243	strong	.	OR51I2	76	.	NM_001004754	exon1	c.C879T	p.S293S	TTATAGCGCCAAG	.	PASS	Atlas-SNP
SLC26A9	115019	hgsc.bcm.edu	37	1	205884138	205884138	+	Missense_Mutation	SNP	C	C	T	rs140760240	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	104	172	0	0.550265	0	C|0.993;T|0.007	0.007	strong	.	SLC26A9	176	.	NM_134325	exon22	c.G2546A	p.R849Q	CTCACTCGTAAAA	.	PASS	Atlas-SNP
CKB	1152	hgsc.bcm.edu	37	14	103986255	103986255	+	Silent	SNP	C	C	T	rs1803283	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	58	70	0	1	0	C|0.398;T|0.602	0.602	strong	.	CKB	9	.	NM_001823	exon8	c.G1092A	p.E364E	CCGCTGCTCCATC	.	PASS	Atlas-SNP
SPATA2L	124044	hgsc.bcm.edu	37	16	89764237	89764237	+	Silent	SNP	C	C	T	rs11866038	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	27	57	0	0.529412	0	C|0.920;T|0.080	0.080	strong	.	SPATA2L	16	.	NM_152339	exon3	c.G780A	p.R260R	TGGTGGCCTGTAG	.	PASS	Atlas-SNP
FCGR2A	2212	hgsc.bcm.edu	37	1	161487914	161487914	+	Silent	SNP	C	C	T	rs12124551	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	416	35	328	0	0.0841346	0	C|0.250;T|0.750	0.750	weak	FCGR2A,colon,carcinoma,0,1	FCGR2A	38	1	NM_001136219	exon7	c.C930T	p.N310N	TCCCAACGACCAT	.	scavenged	Atlas-SNP
KIF26B	55083	hgsc.bcm.edu	37	1	245772651	245772651	+	Missense_Mutation	SNP	C	C	G	rs61754955	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	105	203	0	0.466667	0	C|0.976;G|0.024	0.024	strong	.	KIF26B	343	.	NM_018012	exon8	c.C1735G	p.L579V	TTCAAGCTCATAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513806	195513806	+	Missense_Mutation	SNP	C	C	G	rs199976859	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	47	201	5	0.25	0.0248756	C|0.932;G|0.068	0.068	strong	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G4645C	p.D1549H	TGGTGTCACCTGT	.	scavenged	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	37	17	18221134	18221134	+	Silent	SNP	C	C	T	rs1563631	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	50	96	0	0.50505	0	C|0.770;T|0.230	0.230	strong	SMCR8,colon,carcinoma,0,1	SMCR8	62	1	NM_144775	exon1	c.C2031T	p.Y677Y	CAGCTACGTGAGC	.	PASS	Atlas-SNP
RIMBP2	23504	hgsc.bcm.edu	37	12	130941150	130941150	+	Silent	SNP	G	G	C	rs2277361	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	41	72	0	0.569444	0	G|0.590;C|0.410	0.410	strong	.	RIMBP2	220	.	NM_015347	exon4	c.C198G	p.G66G	AATCTTGCCAGCG	.	PASS	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	37	17	29162173	29162173	+	Silent	SNP	T	T	C	rs11655623	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	153	168	0	0.993506	0	T|0.859;C|0.141	0.141	strong	.	ATAD5	150	.	NM_024857	exon2	c.T1074C	p.P358P	TGATCCTGAGAAT	.	PASS	Atlas-SNP
BRIP1	83990	hgsc.bcm.edu	37	17	59761336	59761336	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	58	111	1	0.453125	0.00900901	.	.	none	BRIP1_ENST00000259008,NS,carcinoma,-1,4	BRIP1	237	4	NM_032043	exon20	c.G3071T	p.G1024V	GATGACCCGAGCT	.	scavenged	Atlas-SNP
DTHD1	401124	hgsc.bcm.edu	37	4	36345377	36345377	+	Silent	SNP	G	G	A	rs2270880	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	37	73	0	0.506849	0	G|0.895;A|0.105	0.105	strong	.	DTHD1	63	.	NM_001170700	exon9	c.G2277A	p.E759E	AGAAGAGCTCAAA	.	PASS	Atlas-SNP
NELFB	25920	hgsc.bcm.edu	37	9	140167022	140167022	+	Silent	SNP	G	G	A	rs3204123	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	65	155	0	0.481481	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
MAP3K1	4214	hgsc.bcm.edu	37	5	56155672	56155672	+	Missense_Mutation	SNP	A	A	G	rs56069227	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	116	217	0	0.50655	0	A|0.976;G|0.024	0.024	strong	.	MAP3K1	355	.	NM_005921	exon3	c.A764G	p.N255S	CTGGCAACTCCCC	.	PASS	Atlas-SNP
OR1A2	26189	hgsc.bcm.edu	37	17	3101578	3101578	+	Missense_Mutation	SNP	G	G	T	rs2241091	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	114	194	0	0.525346	0	G|0.704;T|0.295	0.295	strong	.	OR1A2	52	.	NM_012352	exon1	c.G766T	p.G256C	ACGATGGGCATGT	.	PASS	Atlas-SNP
TAS2R46	259292	hgsc.bcm.edu	37	12	11214360	11214360	+	Silent	SNP	C	C	T	rs73260771	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	107	220	0	0.479821	0	C|0.833;T|0.167	0.167	strong	.	TAS2R46	43	.	NM_176887	exon1	c.G534A	p.T178T	GGTTACCGTTGTA	.	PASS	Atlas-SNP
CNGB1	1258	hgsc.bcm.edu	37	16	57996932	57996932	+	Silent	SNP	G	G	A	rs17821448	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	82	97	0	0.964706	0	G|0.665;A|0.334	0.334	strong	.	CNGB1	105	.	NM_001297	exon5	c.C327T	p.G109G	CTCTACGCCCTTC	.	PASS	Atlas-SNP
HLTF	6596	hgsc.bcm.edu	37	3	148766666	148766666	+	Silent	SNP	T	T	C	rs34474865	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	77	159	0	0.583333	0	T|0.950;C|0.050	0.050	strong	.	HLTF	87	.	NM_139048	exon16	c.A1740G	p.R580R	CCATCTTCTTTCT	.	PASS	Atlas-SNP
OXNAD1	92106	hgsc.bcm.edu	37	3	16327855	16327855	+	Missense_Mutation	SNP	T	T	G	rs842274	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	102	214	0	0.443478	0	T|0.589;G|0.405	0.405	strong	.	OXNAD1	31	.	NM_138381	exon5	c.T190G	p.S64A	ATTGTGTCAGCAG	.	PASS	Atlas-SNP
ZNF862	643641	hgsc.bcm.edu	37	7	149561323	149561323	+	Missense_Mutation	SNP	G	G	A	rs62621237	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	40	104	0	0.465116	0	A|0.021;G|0.979	0.021	strong	.	ZNF862	97	.	NM_001099220	exon8	c.G3460A	p.E1154K	CCTCCCGAGAGAC	.	PASS	Atlas-SNP
FLJ44635	0	hgsc.bcm.edu	37	X	71379853	71379853	+	Silent	SNP	C	C	T	rs7880917	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	153	299	0	0.993506	0	C|0.581;T|0.419	0.419	strong	.	FLJ44635	13	.	NM_207422	exon2	c.C174T	p.S58S	TGCCTCCGCTGAA	.	PASS	Atlas-SNP
RTTN	25914	hgsc.bcm.edu	37	18	67687860	67687860	+	Silent	SNP	T	T	C	rs2304378	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	41	124	0	0.353448	0	T|0.826;C|0.174	0.174	strong	.	RTTN	184	.	NM_173630	exon45	c.A6144G	p.V2048V	CTGAATTACTCCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	90	214	0	0.486486	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
PPP1R36	145376	hgsc.bcm.edu	37	14	65053999	65053999	+	Missense_Mutation	SNP	T	T	C	rs45482504	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	69	160	0	0.43949	0	T|0.924;C|0.076	0.076	strong	.	.	.	.	NM_172365	exon10	c.T799C	p.F267L	AGACTCTTTCGTA	.	PASS	Atlas-SNP
ZNF90	7643	hgsc.bcm.edu	37	19	20228941	20228941	+	Missense_Mutation	SNP	A	A	G	rs61998186	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	14	26	0	0.388889	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
HERC1	8925	hgsc.bcm.edu	37	15	63970456	63970456	+	Missense_Mutation	SNP	T	T	C	rs2228510	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	93	78	0	0.989362	0	T|0.632;C|0.368	0.368	strong	HERC1_ENST00000443617,NS,carcinoma,0,1	HERC1	624	1	NM_003922	exon37	c.A6658G	p.I2220V	TACGGATGAGCTG	.	PASS	Atlas-SNP
HDGFL1	154150	hgsc.bcm.edu	37	6	22570245	22570245	+	Silent	SNP	G	G	A	rs6900627	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	40	85	0	0.434783	0	G|0.820;A|0.180	0.180	strong	.	HDGFL1	33	.	NM_138574	exon1	c.G441A	p.R147R	GAAGAGGAGCGCG	.	PASS	Atlas-SNP
GPR183	1880	hgsc.bcm.edu	37	13	99948178	99948178	+	Silent	SNP	C	C	A	rs2230342	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	227	229	0	1	0	C|0.698;A|0.302	0.302	strong	.	GPR183	38	.	NM_004951	exon2	c.G222T	p.V74V	AGAAATCACCAAA	.	PASS	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	37	10	26462790	26462790	+	Silent	SNP	G	G	A	rs3740232	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	40	84	0	0.481928	0	G|0.681;A|0.319	0.319	strong	MYO3A,colon,carcinoma,0,2	MYO3A	371	2	NM_017433	exon30	c.G3597A	p.E1199E	GGAAGAGGTTAAG	.	PASS	Atlas-SNP
C1QB	713	hgsc.bcm.edu	37	1	22987744	22987744	+	Silent	SNP	C	C	T	rs149718049	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	54	122	0	0.593407	0	C|0.999;T|0.001	0.001	strong	.	C1QB	40	.	NM_000491	exon3	c.C627T	p.T209T	CACCACCGGTGGC	.	PASS	Atlas-SNP
PAXIP1	22976	hgsc.bcm.edu	37	7	154738409	154738409	+	Missense_Mutation	SNP	T	T	C	rs3501	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	54	118	0	0.509434	0	T|0.770;C|0.230	0.230	strong	PAXIP1_ENST00000397192,caecum,carcinoma,0,3	PAXIP1	150	3	NM_007349	exon18	c.A3037G	p.M1013V	GCTCCATGAGCTT	.	PASS	Atlas-SNP
GJA9	81025	hgsc.bcm.edu	37	1	39340862	39340862	+	Silent	SNP	A	A	G	rs874243	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	138	255	0	0.624434	0	G|0.140;N|0.000	0.140	strong	.	GJA9	55	.	NM_030772	exon2	c.T909C	p.S303S	TACAGAAGATGAA	.	PASS	Atlas-SNP
ZDHHC8	29801	hgsc.bcm.edu	37	22	20134739	20134739	+	Silent	SNP	C	C	T	rs9605070	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	13	31	0	0.393939	0	C|0.880;T|0.120	0.120	strong	ZDHHC8_ENST00000405930,rectum,carcinoma,0,1	ZDHHC8	77	1	NM_001185024	exon11	c.C2322T	p.S774S	CCCCAGCCTCTCG	.	PASS	Atlas-SNP
AKNAD1	254268	hgsc.bcm.edu	37	1	109366286	109366286	+	Missense_Mutation	SNP	C	C	T	rs7522157	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	66	197	0	0.39759	0	C|0.793;G|0.000;N|0.000;T|0.206	0.206	strong	AKNAD1,NS,adenoma,0,2	AKNAD1	83	2	NM_152763	exon12	c.G1961A	p.C654Y	TCAGAACAGAAGC	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150946132	150946132	+	Silent	SNP	G	G	A	rs3734059	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	37	100	0	0.37	0	G|0.527;A|0.473	0.473	strong	.	FAT2	465	.	NM_001447	exon1	c.C2361T	p.I787I	ATTGAGGATGTAG	.	PASS	Atlas-SNP
SLC22A2	6582	hgsc.bcm.edu	37	6	160645832	160645832	+	Silent	SNP	C	C	T	rs316003	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	34	38	0	1	0	C|0.301;T|0.699	0.699	strong	.	SLC22A2	78	.	NM_003058	exon10	c.G1506A	p.V502V	GCCAAGCACGCCT	.	PASS	Atlas-SNP
OLR1	4973	hgsc.bcm.edu	37	12	10313448	10313448	+	Missense_Mutation	SNP	C	C	G	rs11053646	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	74	156	0	0.496644	0	C|0.862;G|0.138	0.138	strong	.	OLR1	29	.	NM_001172633	exon4	c.G501C	p.K167N	TTGGCTCTTTTCC	.	PASS	Atlas-SNP
OTOA	146183	hgsc.bcm.edu	37	16	21742179	21742179	+	Silent	SNP	C	C	T	rs461179		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	651	100	1368	5	0.15361	0.00365497	C|0.500;T|0.500	0.500	weak	OTOA_ENST00000388957,NS,carcinoma,0,2	OTOA	144	2	NM_144672	exon20	c.C2229T	p.A743A	GACAGCCGAGACC	.	scavenged	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	64488001	64488001	+	Missense_Mutation	SNP	T	T	C	rs74636274	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250	114	270	0	0.456	0	T|0.996;C|0.004	0.004	strong	.	EYS	527	.	NM_001142800	exon40	c.A7796G	p.H2599R	TTTGGGTGGCCCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	74	152	0	0.451219	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
POLR1A	25885	hgsc.bcm.edu	37	2	86315741	86315741	+	Silent	SNP	C	C	T	rs2288120	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	160	154	0	1	0	C|0.307;T|0.693	0.693	strong	.	POLR1A	137	.	NM_015425	exon6	c.G678A	p.T226T	TGGAAACGTGATA	.	PASS	Atlas-SNP
RPL9	6133	hgsc.bcm.edu	37	4	39458051	39458051	+	Silent	SNP	A	A	G	rs2125313	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	384	212	401	0	0.552083	0	A|0.341;G|0.659	0.659	strong	.	RPL9	16	.	NM_000661	exon5	c.T366C	p.Y122Y	GCGGATATATTTT	.	PASS	Atlas-SNP
C15orf52	388115	hgsc.bcm.edu	37	15	40627845	40627845	+	Silent	SNP	G	G	A	rs55641696	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	45	87	0	0.473684	0	G|0.836;A|0.164	0.164	strong	.	C15orf52	47	.	NM_207380	exon11	c.C1119T	p.S373S	CATCCCGCTCTGC	.	PASS	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48285485	48285485	+	Missense_Mutation	SNP	C	C	T	rs1880738	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	76	152	0	0.481013	0	C|0.624;T|0.376	0.376	strong	ABCA13_ENST00000435803,NS,carcinoma,0,2	ABCA13	1192	2	NM_152701	exon13	c.C1517T	p.P506L	TCTGCCCGAATGG	.	PASS	Atlas-SNP
TMEM55A	55529	hgsc.bcm.edu	37	8	92033502	92033502	+	Silent	SNP	T	T	C	rs34503257	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	27	66	0	0.369863	0	T|0.896;C|0.104	0.104	strong	.	TMEM55A	34	.	NM_018710	exon2	c.A237G	p.T79T	GCAAACTGTGCAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513515	195513515	+	Missense_Mutation	SNP	C	C	T	rs201194776	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	929	162	639	2	0.174381	0.00312989	C|0.965;T|0.036	0.036	strong	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G4936A	p.A1646T	GGGTGGCGTGACC	.	scavenged	Atlas-SNP
FAM185A	222234	hgsc.bcm.edu	37	7	102427889	102427889	+	Missense_Mutation	SNP	C	C	T	rs17842496	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	663	324	652	1	0.488688	0.00153374	C|0.859;T|0.141	0.141	strong	.	FAM185A	10	.	NM_001145268	exon7	c.C1039T	p.R347C	GAAGTTCGTAAAG	.	PASS	Atlas-SNP
BAGE3	85318	hgsc.bcm.edu	37	21	11049592	11049592	+	Silent	SNP	C	C	T	rs3906134	bycluster;byfrequency;by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	563	51	441	0	0.0905861	0	C|0.750;T|0.250	0.250	strong	.	.	.	.	NM_182481	exon4	c.G309A	p.A103A	GGCTGTCGCACAC	.	PASS	Atlas-SNP
BCS1L	617	hgsc.bcm.edu	37	2	219527712	219527712	+	Silent	SNP	C	C	T	rs33946522	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	60	124	0	0.444444	0	C|0.932;G|0.000;T|0.068	0.068	strong	.	BCS1L	22	.	NM_001257343	exon8	c.C996T	p.N332N	CACCAACCACGTT	.	PASS	Atlas-SNP
UAP1L1	91373	hgsc.bcm.edu	37	9	139975195	139975195	+	Silent	SNP	C	C	T	rs41302685	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	22	51	0	0.536585	0	C|0.927;T|0.073	0.073	strong	UAP1L1_ENST00000409858,NS,carcinoma,0,2	UAP1L1	46	2	NM_207309	exon7	c.C1233T	p.N411N	GAAGAACGCAGAG	.	PASS	Atlas-SNP
SHF	90525	hgsc.bcm.edu	37	15	45491136	45491136	+	Missense_Mutation	SNP	C	C	G	rs62026667	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	54	104	0	0.482143	0	C|0.938;G|0.062	0.062	strong	.	SHF	27	.	NM_138356	exon2	c.G137C	p.W46S	AGCATCCAGGAAT	.	PASS	Atlas-SNP
MAST3	23031	hgsc.bcm.edu	37	19	18257750	18257750	+	Silent	SNP	C	C	T	rs2072490	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	100	181	0	0.561798	0	C|0.495;T|0.505	0.505	strong	.	MAST3	83	.	NM_015016	exon25	c.C3135T	p.G1045G	GGTGGGCCCCGCC	.	PASS	Atlas-SNP
OGDHL	55753	hgsc.bcm.edu	37	10	50960209	50960209	+	Silent	SNP	G	G	A	rs1258184	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	40	76	0	0.470588	0	G|0.567;A|0.433	0.433	strong	.	OGDHL	149	.	NM_018245	exon5	c.C564T	p.L188L	CAGAGAGAGGGTG	.	PASS	Atlas-SNP
CYP2D6	1565	hgsc.bcm.edu	37	22	42526763	42526763	+	Missense_Mutation	SNP	C	C	T	rs769258	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	337	201	308	1	0.596439	0.00324675	C|0.971;T|0.029	0.029	strong	.	CYP2D6	104	.	NM_000106	exon1	c.G31A	p.V11M	CTATCACGGCCAG	.	PASS	Atlas-SNP
PXDNL	137902	hgsc.bcm.edu	37	8	52323908	52323908	+	Missense_Mutation	SNP	A	A	G	rs117864200	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	252	289	2	1	0.00692042	A|0.986;G|0.014	0.014	strong	.	PXDNL	414	.	NM_144651	exon16	c.T1964C	p.I655T	TCCACAATCAGTG	.	PASS	Atlas-SNP
FICD	11153	hgsc.bcm.edu	37	12	108910962	108910962	+	Silent	SNP	C	C	T	rs2303634	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	25	54	0	0.510204	0	C|0.969;T|0.031	0.031	strong	FICD,NS,carcinoma,+1,1	FICD	35	1	NM_007076	exon2	c.C213T	p.A71A	GCATGCCGCCACC	.	PASS	Atlas-SNP
MPRIP	23164	hgsc.bcm.edu	37	17	17046024	17046024	+	Missense_Mutation	SNP	C	C	A	rs3744137	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	275	137	267	1	0.498182	0.00374532	C|0.592;A|0.408	0.408	strong	.	MPRIP	87	.	NM_015134	exon8	c.C980A	p.P327Q	CCTCACCATCCAG	.	PASS	Atlas-SNP
KRTAP10-9	386676	hgsc.bcm.edu	37	21	46047633	46047633	+	Missense_Mutation	SNP	A	A	G	rs8127342	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	274	131	320	0	0.478102	0	A|0.343;G|0.657	0.657	strong	.	KRTAP10-9	24	.	NM_198690	exon1	c.A545G	p.Y182C	AGTCCTACTGTGT	.	PASS	Atlas-SNP
SYTL2	54843	hgsc.bcm.edu	37	11	85448679	85448679	+	Missense_Mutation	SNP	G	G	A	rs17744245	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	44	79	0	0.483516	0	G|0.979;A|0.021	0.021	strong	.	SYTL2	231	.	NM_032943	exon5	c.C410T	p.A137V	CTGGAAGCTGGAT	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32363844	32363844	+	Silent	SNP	C	C	T	rs9268480	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	44	87	0	0.369748	0	C|0.785;N|0.000	.	strong	.	BTNL2	50	.	NM_019602	exon5	c.G1050A	p.Q350Q	GGCCTCCTGGTAG	.	PASS	Atlas-SNP
GP6	51206	hgsc.bcm.edu	37	19	55526345	55526345	+	Missense_Mutation	SNP	T	T	G	rs1671152	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	12	12	40	0	1	0	T|0.165;G|0.835	0.835	strong	GP6,rectum,carcinoma,0,2	GP6	55	2	NM_001083899	exon8	c.A968C	p.K323T	CCCCGTTTGATTT	.	PASS	Atlas-SNP
MRPS30	10884	hgsc.bcm.edu	37	5	44809162	44809162	+	Missense_Mutation	SNP	G	G	C	rs3747479	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	26	63	0	0.448276	0	A|0.000;C|0.396;G|0.604	0.396	strong	MRPS30_ENST00000507110,NS,carcinoma,0,4	MRPS30	90	4	NM_016640	exon1	c.G98C	p.C33S	CGACCTGCCAAGA	.	PASS	Atlas-SNP
PABPC4L	132430	hgsc.bcm.edu	37	4	135121066	135121066	+	Missense_Mutation	SNP	T	T	G	rs11099273	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	58	77	0	1	0	T|0.365;G|0.635	0.635	strong	.	PABPC4L	60	.	NM_001114734	exon2	c.A1283C	p.H428P	TCCTAGTGTCTCT	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43506113	43506113	+	Silent	SNP	A	A	C	rs138489968	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	36	57	0	0.5	0	A|0.990;C|0.010	0.010	strong	.	HECW1	540	.	NM_015052	exon15	c.A2859C	p.P953P	GTCCCCAGCGGTC	.	PASS	Atlas-SNP
TCF19	6941	hgsc.bcm.edu	37	6	31129310	31129310	+	Missense_Mutation	SNP	C	C	T	rs7750641	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	68	128	0	0.453333	0	C|0.947;T|0.053	0.053	strong	TCF19,colon,carcinoma,0,1	TCF19	16	1	NM_001077511	exon3	c.C325T	p.P109S	GAAGGGCCCCCAG	.	PASS	Atlas-SNP
FAM179A	165186	hgsc.bcm.edu	37	2	29240673	29240673	+	Missense_Mutation	SNP	G	G	A	rs35166194	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	105	262	0	0.479452	0	G|0.779;A|0.221	0.221	strong	.	FAM179A	106	.	NM_199280	exon10	c.G1211A	p.R404Q	CCCTCCGGGGCAG	.	PASS	Atlas-SNP
XPOT	11260	hgsc.bcm.edu	37	12	64812733	64812733	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	5	195	1	0.0206612	0.00512821	.	.	none	XPOT,bladder,carcinoma,0,5	XPOT	105	5	NM_007235	exon6	c.G348A	p.E116E	TACAGAGTATCTC	.	scavenged	Atlas-SNP
NEUROD1	4760	hgsc.bcm.edu	37	2	182542998	182542998	+	Missense_Mutation	SNP	G	G	T	rs8192556	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	15	45	0	0.319149	0	G|0.981;T|0.019	0.019	strong	.	NEUROD1	67	.	NM_002500	exon2	c.C590A	p.P197H	TGCTCAGGCAGAA	.	PASS	Atlas-SNP
NLRP8	126205	hgsc.bcm.edu	37	19	56466227	56466227	+	Missense_Mutation	SNP	A	A	G	rs7259764	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	80	155	0	0.522876	0	A|0.922;G|0.078	0.078	strong	NLRP8_ENST00000291971,NS,carcinoma,+1,2	NLRP8	225	2	NM_176811	exon3	c.A803G	p.Q268R	GATCTCAGGACCT	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56203898	56203898	+	Missense_Mutation	SNP	T	T	G	rs3809977	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	105	152	1	1	0.00657895	T|0.316;G|0.684	0.684	strong	.	ALPK2	487	.	NM_052947	exon5	c.A3521C	p.H1174P	GGTGAGTGGGCCG	.	PASS	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	37	9	136268897	136268897	+	Silent	SNP	G	G	A	rs36079470	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	33	65	0	0.52381	0	G|0.952;A|0.048	0.048	strong	.	C9orf96	77	.	NM_153710	exon15	c.G1548A	p.A516A	CCCTGCGGATGGG	.	PASS	Atlas-SNP
CLCC1	23155	hgsc.bcm.edu	37	1	109479959	109479959	+	Missense_Mutation	SNP	G	G	A	rs56223817	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	35	136	0	0.397727	0	G|0.986;A|0.014	0.014	strong	.	CLCC1	55	.	NM_001048210	exon10	c.C1123T	p.R375W	GTGGCCGAAGTGC	.	PASS	Atlas-SNP
PIGZ	80235	hgsc.bcm.edu	37	3	196674259	196674259	+	Silent	SNP	G	G	A	rs61179255	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	25	46	0	0.641026	0	G|0.889;A|0.111	0.111	strong	.	PIGZ	34	.	NM_025163	exon3	c.C1509T	p.T503T	TTGTCTGGTGAAG	.	PASS	Atlas-SNP
ZNF443	10224	hgsc.bcm.edu	37	19	12541543	12541543	+	Silent	SNP	A	A	G	rs79866505	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	44	120	0	0.385965	0	A|0.948;G|0.052	0.052	strong	.	ZNF443	63	.	NM_005815	exon4	c.T1443C	p.L481L	TTTCCCAAGTTTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9063935	9063935	+	Silent	SNP	G	G	A	rs2252675	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	120	215	0	0.524017	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
REPIN1	29803	hgsc.bcm.edu	37	7	150068605	150068605	+	Missense_Mutation	SNP	G	G	A	rs17173702	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	28	64	0	0.54902	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
NOX3	50508	hgsc.bcm.edu	37	6	155775980	155775980	+	Silent	SNP	G	G	T	rs12195525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	33	78	0	0.452055	0	G|0.886;T|0.114	0.114	strong	NOX3,rectum,carcinoma,+1,1	NOX3	93	1	NM_015718	exon3	c.C220A	p.R74R	GGTTTCGACTGAC	.	PASS	Atlas-SNP
AGBL1	123624	hgsc.bcm.edu	37	15	86807542	86807542	+	Silent	SNP	C	C	T	rs10520617	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	62	118	0	0.492063	0	C|0.875;T|0.125	0.125	strong	.	AGBL1	151	.	NM_152336	exon10	c.C1002T	p.A334A	GTATGCCAATCAC	.	PASS	Atlas-SNP
TTC21A	199223	hgsc.bcm.edu	37	3	39152345	39152345	+	Missense_Mutation	SNP	G	G	A	rs1112438	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	68	117	0	0.49635	0	G|0.662;A|0.338	0.338	strong	TTC21A,caecum,carcinoma,0,1	TTC21A	96	1	NM_001105513	exon4	c.G272A	p.R91Q	CAGACCGAGAAGC	.	PASS	Atlas-SNP
MAMSTR	284358	hgsc.bcm.edu	37	19	49218602	49218602	+	Silent	SNP	C	C	T	rs12979278	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	47	85	0	0.546512	0	C|0.660;T|0.340	0.340	strong	.	MAMSTR	36	.	NM_001130915	exon5	c.G342A	p.A114A	GGGGTCCGCCCTG	.	PASS	Atlas-SNP
C19orf57	79173	hgsc.bcm.edu	37	19	14001206	14001206	+	Missense_Mutation	SNP	G	G	A	rs144502446	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	28	45	0	0.736842	0	G|0.994;A|0.006	0.006	strong	.	C19orf57	34	.	NM_024323	exon6	c.C463T	p.L155F	CCTGGAGGGGGAC	.	PASS	Atlas-SNP
ATP10D	57205	hgsc.bcm.edu	37	4	47560002	47560002	+	Missense_Mutation	SNP	C	C	A	rs34208443	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	51	96	0	0.504951	0	C|0.865;A|0.135	0.135	strong	ATP10D,NS,carcinoma,-1,1	ATP10D	168	1	NM_020453	exon12	c.C2146A	p.P716T	GGACAGCCATTGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9075635	9075635	+	Silent	SNP	G	G	A	rs2547070	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	314	143	295	1	0.455414	0.00338983	G|0.788;A|0.212	0.212	strong	.	MUC16	4315	.	NM_024690	exon3	c.C11811T	p.S3937S	TGTGGTGGACTCA	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18375882	18375882	+	Missense_Mutation	SNP	G	G	C	rs12608777	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	20	41	1	0.625	0.0243902	G|0.879;C|0.121	0.121	strong	KIAA1683,NS,carcinoma,-1,1	KIAA1683	190	1	NM_001145304	exon3	c.C2468G	p.P823R	GCTGCCGGGCATG	.	scavenged	Atlas-SNP
ESPNL	339768	hgsc.bcm.edu	37	2	239039057	239039057	+	Missense_Mutation	SNP	A	A	G	rs13033248	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	32	65	0	0.969697	0	A|0.615;G|0.385	0.385	strong	.	ESPNL	63	.	NM_194312	exon9	c.A1702G	p.I568V	GCCTCAATCCCAG	.	PASS	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	37	11	103153765	103153765	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	29	100	0	0.213235	0	.	.	none	.	DYNC2H1	246	.	NM_001080463	exon74	c.T10862G	p.L3621R	ATCAGCTTCCGTC	.	PASS	Atlas-SNP
SLC6A17	388662	hgsc.bcm.edu	37	1	110709719	110709719	+	Silent	SNP	T	T	C	rs7527375	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	42	127	0	0.4	0	T|0.518;C|0.482	0.482	strong	.	SLC6A17	86	.	NM_001010898	exon2	c.T168C	p.D56D	GCTGGATGCAGAG	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910663	29910663	+	Missense_Mutation	SNP	G	G	A	rs707910	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	289	108	228	0	0.373702	0	A|0.112;G|0.888	0.112	strong	.	HLA-A	89	.	NM_001242758	exon2	c.G203A	p.R68K	GCCAGAGGATGGA	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240256822	240256822	+	Silent	SNP	C	C	A	rs10926124	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	12	10	18	0	0.833333	0	C|0.617;A|0.383	0.383	strong	FMN2,NS,carcinoma,+1,1	FMN2	451	1	NM_020066	exon1	c.C1413A	p.A471A	CCGGGCCGACGGC	.	scavenged	Atlas-SNP
GPATCH1	55094	hgsc.bcm.edu	37	19	33608733	33608733	+	Silent	SNP	C	C	A	rs2287681	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	39	71	0	0.464286	0	C|0.699;A|0.301	0.301	strong	.	GPATCH1	79	.	NM_018025	exon16	c.C2199A	p.T733T	ACAGACCGTCAAC	.	PASS	Atlas-SNP
MYH13	8735	hgsc.bcm.edu	37	17	10236465	10236465	+	Silent	SNP	G	G	A	rs2240579	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	29	9	44	0	0.310345	0	G|0.544;A|0.455	0.455	strong	MYH13_ENST00000252172,NS,carcinoma,0,2	MYH13	533	2	NM_003802	exon19	c.C2100T	p.N700N	GACCCCGTTACAG	.	PASS	Atlas-SNP
ATF5	22809	hgsc.bcm.edu	37	19	50435998	50435998	+	Silent	SNP	C	C	T	rs34877198	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	58	94	0	0.508772	0	C|0.924;T|0.076	0.076	strong	.	ATF5	27	.	NM_012068	exon4	c.C498T	p.C166C	CTACTGCCGCAAC	.	PASS	Atlas-SNP
AATF	26574	hgsc.bcm.edu	37	17	35346641	35346641	+	Silent	SNP	T	T	C	rs1045056	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	68	131	0	0.623853	0	T|0.782;C|0.218	0.218	strong	.	AATF	36	.	NM_012138	exon7	c.T1245C	p.S415S	GCGCTCTGTCTAT	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201183363	201183363	+	Silent	SNP	C	C	T	rs2282415	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	79	44	0	1	0	C|0.687;T|0.313	0.313	strong	.	IGFN1	220	.	NM_001164586	exon13	c.C8787T	p.A2929A	GGAGGCCGCCACA	.	PASS	Atlas-SNP
ARHGEF10	9639	hgsc.bcm.edu	37	8	1905132	1905132	+	Silent	SNP	G	G	A	rs3735876	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	68	123	0	0.552846	0	G|0.648;A|0.352	0.352	strong	.	ARHGEF10	255	.	NM_014629	exon29	c.G3738A	p.S1246S	AGATTCGCTGGGA	.	PASS	Atlas-SNP
MCOLN3	55283	hgsc.bcm.edu	37	1	85488030	85488030	+	Silent	SNP	G	G	A	rs2028304	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	183	234	0	1	0	G|0.174;A|0.826	0.826	strong	.	MCOLN3	74	.	NM_018298	exon10	c.C1149T	p.L383L	CCACACGAGCATG	.	PASS	Atlas-SNP
ACSL1	2180	hgsc.bcm.edu	37	4	185701549	185701549	+	Silent	SNP	G	G	T	rs1803898	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	30	54	0	0.612245	0	G|0.787;T|0.213	0.213	strong	.	ACSL1	77	.	NM_001995	exon5	c.C414A	p.I138I	CTTCTGGATCAGT	.	PASS	Atlas-SNP
C18orf8	29919	hgsc.bcm.edu	37	18	21109250	21109250	+	Silent	SNP	T	T	C	rs1788825	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	20	61	0	0.392157	0	T|0.236;G|0.000;C|0.764	0.764	strong	.	C18orf8	58	.	NM_013326	exon15	c.T1404C	p.F468F	AGCCTTTGTGGAA	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32134240	32134240	+	Silent	SNP	C	C	T	rs2388982	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	78	149	0	0.472727	0	C|0.283;T|0.717	0.717	strong	.	.	.	.	NM_018169	exon4	c.C351T	p.N117N	CCAAAACGTATGG	.	PASS	Atlas-SNP
SPATA21	374955	hgsc.bcm.edu	37	1	16730308	16730308	+	Missense_Mutation	SNP	G	G	T	rs41269193	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	64	142	1	0.392638	0.00704225	G|0.944;T|0.056	0.056	strong	SPATA21,NS,carcinoma,0,1	SPATA21	47	1	NM_198546	exon10	c.C915A	p.H305Q	GGGGTTGTGGGGA	.	scavenged	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40368391	40368391	+	Silent	SNP	G	G	A	rs76288738	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	488	79	262	0	0.161885	0	G|0.967;A|0.033	0.033	strong	.	FCGBP	416	.	NM_003890	exon28	c.C12957T	p.D4319D	AAGAATGTCACGG	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195452799	195452799	+	Missense_Mutation	SNP	C	C	T	rs71271395	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	549	285	565	1	0.519126	0.00176991	C|0.500;T|0.500	0.500	weak	MUC20,NS,carcinoma,0,1	MUC20	84	1	NM_152673	exon3	c.C812T	p.T271I	CAGACACAGATCT	.	PASS	Atlas-SNP
FAN1	22909	hgsc.bcm.edu	37	15	31229420	31229420	+	Silent	SNP	T	T	C	rs2955795	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	31	138	0	0.326316	0	T|0.603;C|0.397	0.397	strong	.	FAN1	77	.	NM_014967	exon14	c.T3015C	p.H1005H	CTGCCATGTGGTT	.	PASS	Atlas-SNP
ZNF280A	129025	hgsc.bcm.edu	37	22	22869209	22869209	+	Missense_Mutation	SNP	C	C	G	rs362124	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	64	125	0	0.528926	0	C|0.454;G|0.546	0.546	strong	.	ZNF280A	67	.	NM_080740	exon2	c.G746C	p.G249A	GCCAGGCCAGACT	.	PASS	Atlas-SNP
OR52H1	390067	hgsc.bcm.edu	37	11	5566489	5566489	+	Missense_Mutation	SNP	C	C	T	rs10769054	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	69	149	0	0.570248	0	C|0.520;T|0.480	0.480	strong	.	OR52H1	46	.	NM_001005289	exon1	c.G265A	p.A89T	TGAGTGCTTTAGG	.	PASS	Atlas-SNP
CTTN	2017	hgsc.bcm.edu	37	11	70253475	70253475	+	Silent	SNP	C	C	T	rs2298397	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	39	105	0	0.46988	0	C|0.847;T|0.153	0.153	strong	.	CTTN	162	.	NM_001184740	exon3	c.C72T	p.T24T	GGAGACCGACCCT	.	PASS	Atlas-SNP
FAM184B	27146	hgsc.bcm.edu	37	4	17690072	17690072	+	Missense_Mutation	SNP	T	T	C	rs61741063	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	64	139	0	0.477612	0	T|0.986;C|0.014	0.014	strong	FAM184B,colon,carcinoma,+1,1	FAM184B	38	1	NM_015688	exon7	c.A1571G	p.Q524R	CAGTGCTGGCGGC	.	PASS	Atlas-SNP
ZNF594	84622	hgsc.bcm.edu	37	17	5087040	5087040	+	Missense_Mutation	SNP	A	A	G	rs9908414	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	111	93	0	1	0	A|0.710;G|0.290	0.290	strong	ZNF594,caecum,carcinoma,0,1	ZNF594	89	1	NM_032530	exon2	c.T512C	p.I171T	TGTATAATAAGAT	.	PASS	Atlas-SNP
WDR76	79968	hgsc.bcm.edu	37	15	44120559	44120559	+	Missense_Mutation	SNP	T	T	G	rs678084	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	36	48	0	1	0	T|0.202;G|0.798	0.798	strong	.	WDR76	34	.	NM_024908	exon2	c.T457G	p.S153A	ACACCATCCCTGG	.	PASS	Atlas-SNP
TMTC1	83857	hgsc.bcm.edu	37	12	29689157	29689157	+	Silent	SNP	C	C	T	rs36070392	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	28	91	0	0.388889	0	C|0.993;T|0.007	0.007	strong	.	TMTC1	147	.	NM_001193451	exon11	c.G1770A	p.S590S	CAATAACGAAGCT	.	PASS	Atlas-SNP
ART4	420	hgsc.bcm.edu	37	12	14993439	14993439	+	Missense_Mutation	SNP	C	C	T	rs11276	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	98	141	1	0.507772	0.0070922	C|0.688;T|0.312	0.312	strong	ART4,colon,carcinoma,0,2	ART4	27	2	NM_021071	exon2	c.G793A	p.D265N	ACCAGTCTCCTCT	.	scavenged	Atlas-SNP
SYT8	90019	hgsc.bcm.edu	37	11	1857751	1857751	+	Missense_Mutation	SNP	C	C	G	rs3741231	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	47	111	0	0.451923	0	C|0.667;G|0.333	0.333	strong	.	SYT8	29	.	NM_138567	exon6	c.C655G	p.P219A	CGTCTGCCACTGG	.	PASS	Atlas-SNP
CHGB	1114	hgsc.bcm.edu	37	20	5903067	5903067	+	Missense_Mutation	SNP	T	T	A	rs6085324	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	72	116	0	0.605042	0	T|0.776;A|0.224	0.224	strong	CHGB,colon,carcinoma,0,2	CHGB	112	2	NM_001819	exon4	c.T277A	p.S93T	GATGCCTCGGAAG	.	PASS	Atlas-SNP
HIST1H2BF	8343	hgsc.bcm.edu	37	6	26199903	26199903	+	Silent	SNP	C	C	T	rs34961555	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	308	150	223	0	0.487013	0	C|0.953;T|0.047	0.047	strong	.	HIST1H2BF	25	.	NM_003522	exon1	c.C117T	p.S39S	CTATTCCGTGTAC	.	PASS	Atlas-SNP
CHGB	1114	hgsc.bcm.edu	37	20	5903894	5903894	+	Silent	SNP	A	A	G	rs236153	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	9	40	0	0.409091	0	A|0.533;G|0.467	0.467	strong	.	CHGB	112	.	NM_001819	exon4	c.A1104G	p.E368E	AAGTGAAGAATAC	.	PASS	Atlas-SNP
DKKL1	27120	hgsc.bcm.edu	37	19	49867913	49867913	+	Missense_Mutation	SNP	G	G	A	rs919364	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	180	241	2	1	0.00829876	G|0.704;A|0.296	0.296	strong	.	DKKL1	23	.	NM_014419	exon2	c.G85A	p.A29T	CCCTCCGCTGCAG	.	PASS	Atlas-SNP
PTPRF	5792	hgsc.bcm.edu	37	1	44072066	44072066	+	Silent	SNP	C	C	T	rs10890266	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	51	84	0	0.579545	0	C|0.727;N|0.000	.	strong	.	PTPRF	172	.	NM_002840	exon20	c.C3639T	p.P1213P	CCGGCCCCTGTCT	.	PASS	Atlas-SNP
CHRNA3	1136	hgsc.bcm.edu	37	15	78894420	78894420	+	Silent	SNP	A	A	G	rs8192480	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	93	223	0	0.492063	0	A|0.995;G|0.005	0.005	strong	.	CHRNA3	56	.	NM_000743	exon5	c.T564C	p.D188D	GACCAGATCGATT	.	PASS	Atlas-SNP
TTC28	23331	hgsc.bcm.edu	37	22	28389453	28389453	+	Silent	SNP	T	T	C	rs470101	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	53	109	0	0.434426	0	T|0.926;C|0.074	0.074	strong	.	TTC28	84	.	NM_001145418	exon18	c.A5298G	p.T1766T	CTGGGATGTGTAC	.	PASS	Atlas-SNP
PLA2G4F	255189	hgsc.bcm.edu	37	15	42434254	42434254	+	Silent	SNP	G	G	A	rs655427	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	128	107	0	1	0	G|0.540;N|0.000	.	strong	.	PLA2G4F	75	.	NM_213600	exon20	c.C2478T	p.N826N	CTCCACGTTGTTC	.	PASS	Atlas-SNP
LILRB2	10288	hgsc.bcm.edu	37	19	54782919	54782919	+	Missense_Mutation	SNP	C	C	T	rs386056	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	517	241	443	0	0.466151	0	C|0.787;T|0.213	0.213	strong	.	LILRB2	94	.	NM_005874	exon6	c.G703A	p.V235M	GGGCCACGACAGG	.	PASS	Atlas-SNP
OTOF	9381	hgsc.bcm.edu	37	2	26699855	26699855	+	Silent	SNP	G	G	C	rs2272069	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	55	120	0	0.45082	0	G|0.597;C|0.403	0.403	strong	.	OTOF	524	.	NM_194248	exon22	c.C2580G	p.V860V	ATAGGCGACACGC	.	PASS	Atlas-SNP
ALOX12	239	hgsc.bcm.edu	37	17	6904934	6904934	+	Missense_Mutation	SNP	A	A	G	rs434473	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	60	103	0	0.555556	0	A|0.648;G|0.352	0.352	strong	.	ALOX12	49	.	NM_000697	exon8	c.A965G	p.N322S	CTCCCAACCCCAG	.	PASS	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50531137	50531137	+	Missense_Mutation	SNP	A	A	T	rs41281949	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	56	98	0	0.54902	0	A|0.992;T|0.008	0.008	strong	.	C10orf71	179	.	NM_001135196	exon3	c.A547T	p.S183C	GAAAACAGTGTCA	.	PASS	Atlas-SNP
ZNF30	90075	hgsc.bcm.edu	37	19	35435589	35435589	+	Silent	SNP	C	C	T	rs3761066	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	80	63	0	1	0	C|0.747;T|0.253	0.253	strong	.	ZNF30	44	.	NM_001099438	exon5	c.C1722T	p.C574C	GGAATGCGGGAAG	.	PASS	Atlas-SNP
SEC31A	22872	hgsc.bcm.edu	37	4	83795806	83795806	+	Silent	SNP	T	T	C	rs10025654	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	48	96	0	0.505263	0	T|0.602;C|0.398	0.398	strong	.	SEC31A	227	.	NM_001077206	exon6	c.A597G	p.R199R	ATTTTTTCTAAGA	.	PASS	Atlas-SNP
SNPH	9751	hgsc.bcm.edu	37	20	1286057	1286057	+	Missense_Mutation	SNP	G	G	T	rs150050410	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	59	113	0	0.483607	0	G|0.990;T|0.010	0.010	strong	.	SNPH	89	.	NM_014723	exon6	c.G844T	p.G282C	TCCTTCGGCCTGG	.	PASS	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	37	3	38081031	38081031	+	Silent	SNP	A	A	T	rs7616776	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	19	91	0	0.431818	0	A|0.652;T|0.348	0.348	strong	DLEC1_ENST00000346219,NS,carcinoma,0,2	DLEC1	278	2	NM_007337	exon1	c.A315T	p.S105S	GTACTCAGCCGAG	.	PASS	Atlas-SNP
KIAA0754	643314	hgsc.bcm.edu	37	1	39876573	39876573	+	Missense_Mutation	SNP	A	A	C	rs74607331	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	51	206	0	0.289773	0	A|0.988;C|0.012	0.012	strong	KIAA0754_ENST00000530275,NS,carcinoma,+2,2	KIAA0754	93	2	NM_015038	exon1	c.A636C	p.L212F	AAACTTAAGTGGA	.	PASS	Atlas-SNP
TJP1	7082	hgsc.bcm.edu	37	15	30008889	30008889	+	Silent	SNP	G	G	A	rs2229518	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	140	138	0	0.992908	0	G|0.213;A|0.787	0.787	strong	.	TJP1	140	.	NM_003257	exon23	c.C4128T	p.A1376A	GCTGGCGGCAATG	.	PASS	Atlas-SNP
DNAJB8	165721	hgsc.bcm.edu	37	3	128181777	128181777	+	Silent	SNP	A	A	G	rs2659690	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	86	96	0	1	0	G|0.508;N|0.000	0.508	strong	.	DNAJB8	34	.	NM_153330	exon3	c.T312C	p.F104F	GCCACCAAAAAAC	.	PASS	Atlas-SNP
CAMK2D	817	hgsc.bcm.edu	37	4	114429407	114429407	+	Silent	SNP	C	C	T	rs11098193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	76	168	0	0.431818	0	C|0.853;T|0.147	0.147	strong	.	CAMK2D	55	.	NM_172129	exon14	c.G1002A	p.S334S	AACACTCGAACTG	.	PASS	Atlas-SNP
AURKB	9212	hgsc.bcm.edu	37	17	8108339	8108339	+	Silent	SNP	G	G	A	rs2241909	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	178	192	0	1	0	G|0.385;A|0.615	0.615	strong	.	AURKB	47	.	NM_004217	exon9	c.C885T	p.S295S	GGGCACGGAAGCG	.	PASS	Atlas-SNP
PRAMEF2	65122	hgsc.bcm.edu	37	1	12921137	12921137	+	Missense_Mutation	SNP	T	T	A	rs17039283		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	4	237	1	0.0190476	0.00421941	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
FABP2	2169	hgsc.bcm.edu	37	4	120240238	120240238	+	Silent	SNP	T	T	C	rs1511025	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	202	219	0	1	0	T|0.654;C|0.346	0.346	strong	FABP2,NS,carcinoma,-1,1	FABP2	21	1	NM_000134	exon4	c.A357G	p.V119V	TTCATATACATAA	.	PASS	Atlas-SNP
FKBP2	2286	hgsc.bcm.edu	37	11	64009879	64009879	+	Missense_Mutation	SNP	G	G	A	rs4672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	31	45	0	0.442857	0	G|0.952;A|0.048	0.048	strong	.	FKBP2	8	.	NM_004470	exon2	c.G20A	p.R7Q	GGTTCCGGGTCCT	.	PASS	Atlas-SNP
BOC	91653	hgsc.bcm.edu	37	3	112991959	112991959	+	Silent	SNP	C	C	T	rs11710894	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	98	184	0	0.535519	0	C|0.773;T|0.227	0.227	strong	.	BOC	139	.	NM_033254	exon8	c.C1005T	p.P335P	CATCCCCTGGGGC	.	PASS	Atlas-SNP
C9orf131	138724	hgsc.bcm.edu	37	9	35044398	35044398	+	Missense_Mutation	SNP	T	T	C	rs34368082	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	52	94	0	0.509804	0	T|0.991;C|0.009	0.009	strong	.	C9orf131	71	.	NM_203299	exon2	c.T1772C	p.I591T	GGGACATACAAAA	.	PASS	Atlas-SNP
SEMA3C	10512	hgsc.bcm.edu	37	7	80378319	80378319	+	Silent	SNP	G	G	C	rs2272351	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	71	94	0	1	0	G|0.093;C|0.907	0.907	strong	.	SEMA3C	106	.	NM_006379	exon17	c.C1737G	p.V579V	ATACTGGACAATT	.	PASS	Atlas-SNP
EXOC3L4	91828	hgsc.bcm.edu	37	14	103566904	103566904	+	Silent	SNP	G	G	A	rs1057640	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	106	238	1	0.552083	0.00420168	G|0.830;A|0.170	0.170	strong	.	EXOC3L4	35	.	NM_001077594	exon1	c.G348A	p.Q116Q	CAGCCAGCAGGCA	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70182390	70182390	+	Missense_Mutation	SNP	T	T	G	rs62050978	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	524	130	377	0	0.248092	0	T|0.500;G|0.500	0.500	strong	.	PDPR	66	.	NM_017990	exon17	c.T1986G	p.N662K	TGCAAATGGGATC	.	PASS	Atlas-SNP
AVEN	57099	hgsc.bcm.edu	37	15	34159969	34159969	+	Missense_Mutation	SNP	C	C	A	rs61729120	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	46	111	0	0.46	0	C|0.989;A|0.011	0.011	strong	.	AVEN	30	.	NM_020371	exon5	c.G700T	p.G234W	CAGGCCCCAAGGG	.	PASS	Atlas-SNP
RHCG	51458	hgsc.bcm.edu	37	15	90023558	90023558	+	Missense_Mutation	SNP	G	G	A	rs17807723	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	37	99	0	0.420455	0	G|0.905;A|0.095	0.095	strong	.	RHCG	49	.	NM_016321	exon4	c.C604T	p.R202C	GGTTGCGTCGGTA	.	PASS	Atlas-SNP
BCL9	607	hgsc.bcm.edu	37	1	147091972	147091972	+	Missense_Mutation	SNP	C	C	T	rs3820129	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	67	122	0	0.429487	0	C|0.747;T|0.253	0.253	strong	.	BCL9	150	.	NM_004326	exon8	c.C2011T	p.P671S	ATGGAGCCTGGGA	.	PASS	Atlas-SNP
HIVEP2	3097	hgsc.bcm.edu	37	6	143074700	143074700	+	Silent	SNP	T	T	C	rs169098	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	44	144	0	0.369748	0	T|0.258;C|0.742	0.742	strong	.	HIVEP2	225	.	NM_006734	exon10	c.A6885G	p.P2295P	GCTAGGTGGACCA	.	PASS	Atlas-SNP
ADAMDEC1	27299	hgsc.bcm.edu	37	8	24256470	24256470	+	Silent	SNP	C	C	T	rs2291577	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	173	125	0	1	0	C|0.670;T|0.330	0.330	strong	.	ADAMDEC1	69	.	NM_014479	exon9	c.C846T	p.S282S	GCCCAGCGCAAGC	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46927489	46927489	+	Silent	SNP	A	A	G	rs12483761	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	93	184	0	0.489474	0	A|0.882;G|0.118	0.118	strong	.	COL18A1	129	.	NM_030582	exon38	c.A3762G	p.T1254T	CCGGACACCACTC	.	PASS	Atlas-SNP
PAICS	10606	hgsc.bcm.edu	37	4	57314612	57314612	+	Missense_Mutation	SNP	C	C	G	rs138933625	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	126	235	0	0.520661	0	C|0.962;G|0.038	0.038	strong	PAICS,NS,haematopoietic_neoplasm,0,1	PAICS	21	1	NM_001079525	exon5	c.C443G	p.S148C	AGTGGTCTGAGGA	.	PASS	Atlas-SNP
NLRP14	338323	hgsc.bcm.edu	37	11	7059981	7059981	+	Missense_Mutation	SNP	G	G	A	rs61063081	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	59	98	0	0.508621	0	G|0.835;A|0.165	0.165	strong	.	NLRP14	187	.	NM_176822	exon2	c.G164A	p.R55Q	CCAGGCGGGAGGA	.	PASS	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70925665	70925665	+	Silent	SNP	G	G	A	rs10148733	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	68	138	0	0.407186	0	G|0.914;A|0.086	0.086	strong	.	ADAM21	181	.	NM_003813	exon2	c.G1449A	p.Q483Q	TCATCAGTGTCCA	.	PASS	Atlas-SNP
SPTAN1	6709	hgsc.bcm.edu	37	9	131371241	131371241	+	Missense_Mutation	SNP	A	A	G	rs145038571	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	75	140	0	0.46875	0	A|0.999;G|0.001	0.001	strong	.	SPTAN1	266	.	NM_003127	exon35	c.A4580G	p.N1527S	GGCGCAATGAGGT	.	PASS	Atlas-SNP
NMI	9111	hgsc.bcm.edu	37	2	152139416	152139416	+	Missense_Mutation	SNP	G	G	A	rs1048135	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	59	130	0	0.393333	0	G|0.672;N|0.000	.	strong	NMI,colon,carcinoma,+1,1	NMI	21	1	NM_004688	exon2	c.C47T	p.S16L	TCTGGCGAATGCT	.	PASS	Atlas-SNP
PNPLA8	50640	hgsc.bcm.edu	37	7	108155377	108155377	+	Missense_Mutation	SNP	G	G	A	rs139626312	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	23	35	0	0.547619	0	G|0.997;A|0.003	0.003	strong	PNPLA8,caecum,carcinoma,+1,2	PNPLA8	82	2	NM_001256008	exon2	c.C559T	p.R187C	GACTGCGTTTACC	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152192825	152192825	+	Missense_Mutation	SNP	C	C	T	rs6666097	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	170	127	0	1	0	C|0.545;T|0.455	0.455	strong	HRNR,NS,carcinoma,+1,1	HRNR	403	1	NM_001009931	exon3	c.G1280A	p.G427D	CGCTGGCCGTGGC	.	PASS	Atlas-SNP
ZNF440	126070	hgsc.bcm.edu	37	19	11941221	11941221	+	Missense_Mutation	SNP	T	T	A	rs424132	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	231	111	257	0	0.480519	0	T|0.703;A|0.297	0.297	strong	.	ZNF440	56	.	NM_152357	exon2	c.T127A	p.L43I	ACCTCTTTAGGTA	.	PASS	Atlas-SNP
USH1C	10083	hgsc.bcm.edu	37	11	17519742	17519742	+	Missense_Mutation	SNP	C	C	G	rs1064074	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	158	142	0	0.9875	0	C|0.515;G|0.483	0.483	strong	USH1C,NS,carcinoma,-2,1	USH1C	157	1	NM_153676	exon24	c.G2457C	p.E819D	GGCAGCCTCAGCC	.	PASS	Atlas-SNP
KRT75	9119	hgsc.bcm.edu	37	12	52827786	52827786	+	Silent	SNP	C	C	T	rs2232385	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	76	190	0	0.439306	0	C|0.856;T|0.144	0.144	strong	KRT75,colon,carcinoma,-2,1	KRT75	75	1	NM_004693	exon1	c.G303A	p.G101G	TCCACCCCCATAG	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63937209	63937209	+	Missense_Mutation	SNP	C	C	G	rs2229749	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	150	140	0	0.993378	0	C|0.338;G|0.662	0.662	strong	HERC1_ENST00000443617,NS,carcinoma,0,1	HERC1	624	1	NM_003922	exon57	c.G11166C	p.E3722D	TTCCTGCTCCCAC	.	PASS	Atlas-SNP
SH2D4A	63898	hgsc.bcm.edu	37	8	19221700	19221700	+	Missense_Mutation	SNP	G	G	A	rs34608771	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	41	94	0	0.546667	0	G|0.764;A|0.236	0.236	strong	.	SH2D4A	49	.	NM_022071	exon7	c.G824A	p.S275N	TGCAAAGCCCCTT	.	PASS	Atlas-SNP
USP22	23326	hgsc.bcm.edu	37	17	20911204	20911204	+	Silent	SNP	G	G	T	rs11541311	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	47	108	0	0.5	0	G|0.838;T|0.162	0.162	strong	.	USP22	45	.	NM_015276	exon9	c.C1209A	p.I403I	GGCTACGATGGGC	.	PASS	Atlas-SNP
EML5	161436	hgsc.bcm.edu	37	14	89151392	89151392	+	Silent	SNP	C	C	A	rs17204164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	59	126	0	0.443609	0	C|0.962;A|0.038	0.038	strong	.	EML5	141	.	NM_183387	exon20	c.G2949T	p.V983V	TTTATCCACTTCT	.	PASS	Atlas-SNP
PSMB5	5693	hgsc.bcm.edu	37	14	23504021	23504021	+	Missense_Mutation	SNP	G	G	A	rs11543947	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	47	91	0	0.456311	0	G|0.946;A|0.054	0.054	strong	.	PSMB5	31	.	NM_001144932	exon1	c.C70T	p.R24C	CTGCACGACCCCC	.	PASS	Atlas-SNP
DOCK5	80005	hgsc.bcm.edu	37	8	25222165	25222165	+	Missense_Mutation	SNP	A	A	G	rs2271111	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	86	206	0	0.472527	0	A|0.749;G|0.251	0.251	strong	DOCK5,NS,carcinoma,0,1	DOCK5	167	1	NM_024940	exon30	c.A3068G	p.Q1023R	TAAATCAGTTTGC	.	PASS	Atlas-SNP
DYSF	8291	hgsc.bcm.edu	37	2	71738987	71738987	+	Silent	SNP	C	C	T	rs34603128	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	46	91	0	0.567901	0	C|0.861;T|0.139	0.139	strong	.	DYSF	536	.	NM_001130984	exon5	c.C396T	p.P132P	TGTGCCCCTGTTC	.	PASS	Atlas-SNP
IQCE	23288	hgsc.bcm.edu	37	7	2611878	2611878	+	Silent	SNP	T	T	C	rs2917751	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	76	67	0	0.987013	0	T|0.301;C|0.699	0.699	strong	.	IQCE	66	.	NM_152558	exon5	c.T312C	p.T104T	GTGGACTGGCGTC	.	PASS	Atlas-SNP
SLC9A4	389015	hgsc.bcm.edu	37	2	103095404	103095404	+	Silent	SNP	G	G	A	rs11692304	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	50	115	0	0.520833	0	G|0.609;A|0.391	0.391	strong	SLC9A4,NS,carcinoma,+1,1	SLC9A4	115	1	NM_001011552	exon2	c.G363A	p.S121S	CAAATCGCCTCCG	.	PASS	Atlas-SNP
BCL2A1	597	hgsc.bcm.edu	37	15	80263217	80263217	+	Missense_Mutation	SNP	C	C	T	rs3826007	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	128	218	0	0.537815	0	C|0.805;T|0.195	0.195	strong	.	BCL2A1	28	.	NM_001114735	exon1	c.G245A	p.G82D	ATGATGCCGTCTT	.	PASS	Atlas-SNP
ETFB	2109	hgsc.bcm.edu	37	19	51850290	51850290	+	Missense_Mutation	SNP	G	G	A	rs1130426	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	143	141	0	1	0	T|0.000;G|0.497;C|0.000;A|0.503	0.503	strong	.	ETFB	46	.	NM_001014763	exon4	c.C734T	p.T245M	TCCAGCGTCACCT	.	PASS	Atlas-SNP
MPHOSPH10	10199	hgsc.bcm.edu	37	2	71366957	71366957	+	Missense_Mutation	SNP	C	C	A	rs3732240	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	23	34	0	0.45098	0	C|0.956;A|0.044	0.044	strong	MPHOSPH10,NS,carcinoma,0,1	MPHOSPH10	81	1	NM_005791	exon6	c.C1273A	p.L425M	CTTCAACTGGAAG	.	PASS	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50720622	50720622	+	Silent	SNP	C	C	T	rs11547728	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	13	53	0	0.590909	0	C|0.609;T|0.391	0.391	strong	.	PLXNB2	172	.	NM_012401	exon19	c.G3108A	p.Q1036Q	CATGGGCTGCAGG	.	PASS	Atlas-SNP
NACA2	342538	hgsc.bcm.edu	37	17	59667953	59667953	+	Nonsense_Mutation	SNP	G	G	A	rs17610181	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	325	136	290	1	0.418462	0.00344828	G|0.879;A|0.121	0.121	strong	.	NACA2	33	.	NM_199290	exon1	c.C589T	p.R197X	GAGCTCGGACTGC	.	PASS	Atlas-SNP
FAM120B	84498	hgsc.bcm.edu	37	6	170627651	170627651	+	Silent	SNP	G	G	A	rs9460113	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	195	226	0	1	0	G|0.427;A|0.573	0.573	strong	.	FAM120B	108	.	NM_032448	exon2	c.G1173A	p.T391T	TCCCACGTGTACA	.	PASS	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	37	9	7174673	7174673	+	Missense_Mutation	SNP	G	G	A	rs913588	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	56	122	0	0.430769	0	G|0.609;A|0.391	0.391	strong	.	KDM4C	186	.	NM_015061	exon22	c.G3115A	p.V1039I	GACCCTGTATACC	.	PASS	Atlas-SNP
SRSF6	6431	hgsc.bcm.edu	37	20	42087079	42087079	+	Silent	SNP	C	C	G	rs147967864	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	15	25	0	0.681818	0	C|0.972;G|0.028	0.028	strong	.	SRSF6	37	.	NM_006275	exon2	c.C186G	p.G62G	CTGCGGCGAGCGC	.	PASS	Atlas-SNP
FAAH	2166	hgsc.bcm.edu	37	1	46871746	46871746	+	Silent	SNP	G	G	A	rs41305628	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	66	87	0	0.634615	0	G|0.970;A|0.030	0.030	strong	.	FAAH	36	.	NM_001441	exon6	c.G822A	p.E274E	ACAGGAGGCAGGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	35	77	0	0.530303	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
SKA3	221150	hgsc.bcm.edu	37	13	21729267	21729267	+	Missense_Mutation	SNP	G	G	A	rs11147977	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	28	96	0	0.187919	0	G|0.905;A|0.095	0.095	strong	.	SKA3	76	.	NM_001166017	exon8	c.C1142T	p.T381I	TTCTGTGTTGGAT	.	PASS	Atlas-SNP
DHCR7	1717	hgsc.bcm.edu	37	11	71155129	71155129	+	Silent	SNP	G	G	A	rs4316537	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	48	109	0	0.421053	0	G|0.911;A|0.089	0.089	strong	.	DHCR7	98	.	NM_001163817	exon4	c.C231T	p.T77T	ATGTCCGGTGACG	.	PASS	Atlas-SNP
MYLK	4638	hgsc.bcm.edu	37	3	123332995	123332995	+	Missense_Mutation	SNP	G	G	A	rs200490629	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	78	112	0	0.549296	0	G|1.000;A|0.000	0.000	strong	.	MYLK	224	.	NM_053025	exon34	c.C5702T	p.T1901M	TCCATCGTTTCCA	.	PASS	Atlas-SNP
TMEM126B	55863	hgsc.bcm.edu	37	11	85347173	85347173	+	Missense_Mutation	SNP	C	C	T	rs17850847	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	39	84	0	0.52	0	C|0.983;T|0.017	0.017	strong	.	TMEM126B	13	.	NM_018480	exon5	c.C593T	p.A198V	TAATGGCGATTCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	81	190	0	0.45	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
RBBP6	5930	hgsc.bcm.edu	37	16	24583406	24583406	+	Silent	SNP	A	A	G	rs7593	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	77	130	0	0.496774	0	A|0.650;G|0.350	0.350	strong	.	RBBP6	158	.	NM_006910	exon18	c.A5019G	p.A1673A	GAAAGCAAAAGAG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092928	1092928	+	Missense_Mutation	SNP	T	T	A	rs376681392		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	17	133	14	0.118881	0.105263	.	.	weak	MUC2_ENST00000441003,rectum,carcinoma,0,4	MUC2	614	4	NM_002457	exon30	c.T4747A	p.S1583T	CCAACATCGACAC	.	scavenged	Atlas-SNP
ARHGAP32	9743	hgsc.bcm.edu	37	11	128839156	128839156	+	Silent	SNP	T	T	C	rs3740829	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	87	162	0	0.47541	0	T|0.918;C|0.082	0.082	strong	.	ARHGAP32	307	.	NM_001142685	exon22	c.A5910G	p.E1970E	GTGTTCTTCCTCC	.	PASS	Atlas-SNP
ERCC2	2068	hgsc.bcm.edu	37	19	45854919	45854919	+	Missense_Mutation	SNP	T	T	G	rs13181	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	44	109	0	0.389381	0	A|0.006;C|0.001	.	strong	.	ERCC2	78	.	NM_000400	exon23	c.A2251C	p.K751Q	TCCTCTTCAGCGT	.	PASS	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	37	4	123664247	123664247	+	Silent	SNP	G	G	A	rs309371	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	57	143	0	0.398601	0	G|0.895;A|0.105	0.105	strong	.	BBS12	63	.	NM_001178007	exon3	c.G1200A	p.V400V	TCACGTGTTACAG	.	PASS	Atlas-SNP
CDT1	81620	hgsc.bcm.edu	37	16	88873824	88873824	+	Missense_Mutation	SNP	C	C	G	rs141663679	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	87	121	0	0.591837	0	C|0.998;G|0.002	0.002	strong	.	CDT1	30	.	NM_030928	exon9	c.C1411G	p.P471A	CGCAAGCCTGCGC	.	PASS	Atlas-SNP
PCDHA2	56146	hgsc.bcm.edu	37	5	140174622	140174622	+	Missense_Mutation	SNP	G	G	A	rs9686540	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	61	218	0	0.354651	0	G|0.493;A|0.507	0.507	strong	.	PCDHA2	404	.	NM_031495	exon1	c.G73A	p.E25K	GCCTGGGAGGTGG	.	PASS	Atlas-SNP
CLCN2	1181	hgsc.bcm.edu	37	3	184075047	184075047	+	Silent	SNP	A	A	G	rs2228291	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	31	48	0	0.418919	0	A|0.659;G|0.341	0.341	strong	.	CLCN2	74	.	NM_001171087	exon9	c.T906C	p.I302I	GGCTGTAATAGTC	.	PASS	Atlas-SNP
MYPOP	339344	hgsc.bcm.edu	37	19	46404579	46404579	+	Silent	SNP	A	A	G	rs10423899	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	22	36	0	1	0	A|0.160;G|0.840	0.840	strong	.	MYPOP	23	.	NM_001012643	exon2	c.T453C	p.P151P	GCGCTGAGGGCAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	154	163	0	0.987179	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
LCNL1	401562	hgsc.bcm.edu	37	9	139879196	139879196	+	Silent	SNP	C	C	T	rs201494183	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	35	62	0	0.5	0	C|0.996;T|0.004	0.004	strong	.	LCNL1	4	.	NM_207510	exon3	c.C228T	p.F76F	GGCCTTCTCCGAC	.	PASS	Atlas-SNP
ARHGEF10	9639	hgsc.bcm.edu	37	8	1817367	1817367	+	Silent	SNP	G	G	A	rs7003969	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	105	223	0	0.441176	0	G|0.777;A|0.223	0.223	strong	.	ARHGEF10	255	.	NM_014629	exon7	c.G630A	p.E210E	TCCAGAGGAAGCA	.	PASS	Atlas-SNP
GRIA1	2890	hgsc.bcm.edu	37	5	153029960	153029960	+	Silent	SNP	T	T	C	rs707176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	121	152	0	0.664835	0	T|0.766;C|0.234	0.234	strong	.	GRIA1	321	.	NM_001258021	exon4	c.T561C	p.I187I	CAACATTTTGACA	.	PASS	Atlas-SNP
BAIAP3	8938	hgsc.bcm.edu	37	16	1388618	1388618	+	Missense_Mutation	SNP	G	G	A	rs11642118	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	58	95	0	0.537037	0	G|0.989;A|0.011	0.011	strong	.	BAIAP3	88	.	NM_003933	exon2	c.G173A	p.R58H	TCCGCCGCAGGAC	.	PASS	Atlas-SNP
DFFB	1677	hgsc.bcm.edu	37	1	3800242	3800242	+	Silent	SNP	A	A	G	rs3205087	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	63	157	0	0.588785	0	A|0.607;G|0.393	0.393	strong	.	DFFB	30	.	NM_004402	exon7	c.A954G	p.P318P	TGACCCAAGCAGA	.	PASS	Atlas-SNP
LEPREL1	55214	hgsc.bcm.edu	37	3	189713205	189713205	+	Silent	SNP	T	T	C	rs9821880	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	18	87	0	0.36	0	C|0.302;N|0.001	0.302	strong	.	LEPREL1	95	.	NM_018192	exon2	c.A507G	p.E169E	AGCTGCTTCCACT	.	PASS	Atlas-SNP
OR2F1	26211	hgsc.bcm.edu	37	7	143657427	143657427	+	Missense_Mutation	SNP	C	C	T	rs2072164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	105	205	0	0.509709	0	C|0.910;T|0.090	0.090	strong	.	OR2F1	71	.	NM_012369	exon1	c.C364T	p.R122C	TATGACCGCTATG	.	PASS	Atlas-SNP
KRTAP5-9	3846	hgsc.bcm.edu	37	11	71259841	71259841	+	Silent	SNP	C	C	T	rs189729045	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	355	159	290	0	0.447887	0	C|0.996;T|0.004	0.004	strong	.	KRTAP5-9	19	.	NM_005553	exon1	c.C138T	p.C46C	CGTGTGCTGCTGT	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15839034	15839034	+	Silent	SNP	G	G	A	rs1050113	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	43	92	0	0.511905	0	T|0.000;G|0.726;C|0.000;A|0.274	0.274	strong	MYH11_ENST00000396324,NS,carcinoma,-2,4	MYH11	520	4	NM_001040114	exon21	c.C2493T	p.A831A	GTAGGCGGCGCAG	.	PASS	Atlas-SNP
OR5D16	390144	hgsc.bcm.edu	37	11	55606302	55606302	+	Silent	SNP	G	G	T	rs6591699	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	357	151	362	0	0.422969	0	G|0.350;T|0.650	0.650	strong	OR5D16,NS,carcinoma,+1,1	OR5D16	94	1	NM_001005496	exon1	c.G75T	p.L25L	GGAACTGCAAATT	.	PASS	Atlas-SNP
VPS13D	55187	hgsc.bcm.edu	37	1	12429611	12429611	+	Silent	SNP	C	C	T	rs2295338	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	69	138	0	0.43949	0	C|0.940;T|0.060	0.060	strong	.	VPS13D	316	.	NM_015378	exon54	c.C10662T	p.D3554D	CTGGGACGAACCC	.	PASS	Atlas-SNP
CRLF3	51379	hgsc.bcm.edu	37	17	29113016	29113016	+	Silent	SNP	A	A	G	rs34756112	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	54	75	0	1	0	A|0.868;G|0.132	0.132	strong	.	CRLF3	36	.	NM_015986	exon7	c.T993C	p.D331D	TATGCTATCTCTT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511668	195511668	+	Silent	SNP	G	G	A	rs3107748	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	451	116	254	3	0.257206	0.011811	G|0.762;A|0.238	0.238	strong	MUC4_ENST00000463781,NS,carcinoma,0,5	MUC4	1505	5	NM_018406	exon2	c.C6783T	p.D2261D	GGAAGCGTCGGTG	.	scavenged	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388324	1388324	+	Missense_Mutation	SNP	A	A	C	rs74377230	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	33	255	1	0.143478	0.00392157	A|0.833;C|0.167	0.167	weak	CRIPAK,caecum,carcinoma,0,1	CRIPAK	185	1	NM_175918	exon1	c.A25C	p.N9H	TGTGCCAATGTGG	.	scavenged	Atlas-SNP
OR1I1	126370	hgsc.bcm.edu	37	19	15198507	15198507	+	Missense_Mutation	SNP	T	T	C	rs8108721	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	191	237	1	0.994792	0.00421941	T|0.313;C|0.687	0.687	strong	.	OR1I1	58	.	NM_001004713	exon1	c.T631C	p.F211L	AGCCCATTCTCCT	.	PASS	Atlas-SNP
ARNT2	9915	hgsc.bcm.edu	37	15	80884025	80884025	+	Missense_Mutation	SNP	G	G	A	rs4072568	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	94	196	0	0.497355	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
ANKRD30B	374860	hgsc.bcm.edu	37	18	14848820	14848820	+	Missense_Mutation	SNP	C	C	T	rs76917476	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	93	239	0	0.407895	0	.	.	weak	ANKRD30B_ENST00000358984,NS,carcinoma,0,1	ANKRD30B	237	1	NM_001145029	exon34	c.C2930T	p.T977M	AACAAACGAAAAA	.	PASS	Atlas-SNP
CDSN	1041	hgsc.bcm.edu	37	6	31084048	31084048	+	Silent	SNP	A	A	G	rs3094216	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	77	136	0	0.472393	0	A|0.790;G|0.210	0.210	strong	.	CDSN	48	.	NM_001264	exon2	c.T1344C	p.C448C	GCTGCCACAAGGC	.	PASS	Atlas-SNP
OR10G2	26534	hgsc.bcm.edu	37	14	22102439	22102439	+	Missense_Mutation	SNP	C	C	G	rs41361344	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	348	94	471	0	0.270115	0	C|0.586;G|0.414	0.414	strong	OR10G2,NS,carcinoma,0,2	OR10G2	35	2	NM_001005466	exon1	c.G560C	p.R187P	ACTGCGCGGATGT	.	PASS	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	37	4	77631425	77631425	+	Missense_Mutation	SNP	T	T	A	rs3821979	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	64	124	0	0.48855	0	T|0.843;A|0.157	0.157	strong	.	SHROOM3	134	.	NM_020859	exon3	c.T440A	p.L147H	TTAAACTTCGGCT	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75982186	75982186	+	Missense_Mutation	SNP	G	G	A	rs199819221		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	47	157	0	0.343066	0	.	.	weak	CSPG4,NS,carcinoma,-1,1	CSPG4	175	1	NM_001897	exon3	c.C1220T	p.P407L	ATGGCTGGCCAAG	.	scavenged	Atlas-SNP
HSPA4L	22824	hgsc.bcm.edu	37	4	128741710	128741710	+	Missense_Mutation	SNP	T	T	C	rs35518193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	49	109	0	0.398374	0	T|0.967;C|0.033	0.033	strong	HSPA4L,NS,carcinoma,-1,2	HSPA4L	82	2	NM_014278	exon14	c.T1802C	p.I601T	GCTACATTGAAAA	.	PASS	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	37	6	32190390	32190390	+	Missense_Mutation	SNP	T	T	G	rs915894	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	105	187	0	0.410156	0	T|0.623;G|0.377	0.377	strong	.	NOTCH4	201	.	NM_004557	exon3	c.A349C	p.K117Q	CAAGCTTGGCCTG	.	PASS	Atlas-SNP
AKR1E2	83592	hgsc.bcm.edu	37	10	4889403	4889403	+	Nonsense_Mutation	SNP	C	C	T	rs12240276	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	103	189	0	0.517588	0	C|0.901;T|0.099	0.099	strong	.	AKR1E2	30	.	NM_001040177	exon9	c.C901T	p.R301X	AATCTCCGACTGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	61	92	0	0.476562	0	A|0.707;T|0.293	0.293	strong	.	NACAD	44	.	NM_001146334	exon2	c.T1314A	p.D438E	AGTCCCATCCTGA	.	PASS	Atlas-SNP
WDR62	284403	hgsc.bcm.edu	37	19	36594676	36594676	+	Missense_Mutation	SNP	C	C	G	rs35811023	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	27	57	0	0.519231	0	C|0.995;G|0.005	0.005	strong	.	WDR62	102	.	NM_001083961	exon30	c.C3946G	p.Q1316E	GATACCCAGCCTG	.	PASS	Atlas-SNP
NR1I3	9970	hgsc.bcm.edu	37	1	161202605	161202605	+	Silent	SNP	G	G	A	rs2307424	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	25	87	0	0.316456	0	G|0.688;A|0.312	0.312	strong	.	NR1I3	74	.	NM_005122	exon5	c.C540T	p.P180P	GAAGACGGGCAGG	.	PASS	Atlas-SNP
ENTPD7	57089	hgsc.bcm.edu	37	10	101451194	101451194	+	Silent	SNP	A	A	C	rs72832512	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	53	127	0	0.481818	0	A|0.978;C|0.022	0.022	strong	.	ENTPD7	44	.	NM_020354	exon8	c.A762C	p.V254V	GACAGTAGGGATA	.	PASS	Atlas-SNP
CHFR	55743	hgsc.bcm.edu	37	12	133435716	133435716	+	Silent	SNP	T	T	G	rs35011845	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	55	86	0	0.5	0	T|0.796;G|0.204	0.204	strong	.	CHFR	83	.	NM_001161344	exon8	c.A885C	p.P295P	CTTGTCTGGCTTC	.	PASS	Atlas-SNP
PPP1R1A	5502	hgsc.bcm.edu	37	12	54974803	54974803	+	Silent	SNP	C	C	T	rs8407	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	380	165	318	0	0.434211	0	C|0.825;T|0.175	0.175	strong	PPP1R1A_ENST00000257905,NS,carcinoma,-2,2	PPP1R1A	18	2	NM_006741	exon6	c.G435A	p.E145E	GCCTCTCTCGTGA	.	PASS	Atlas-SNP
SYPL2	284612	hgsc.bcm.edu	37	1	110019439	110019439	+	Missense_Mutation	SNP	A	A	G	rs62623713	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	24	98	0	0.333333	0	A|0.962;G|0.038	0.038	strong	SYPL2,NS,carcinoma,-1,1	SYPL2	41	1	NM_001040709	exon4	c.A296G	p.E99G	ATGAAGAGTCCAG	.	PASS	Atlas-SNP
IRX2	153572	hgsc.bcm.edu	37	5	2749539	2749539	+	Silent	SNP	G	G	C	rs61748183	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	155	232	0	0.582707	0	G|0.997;C|0.003	0.003	strong	.	IRX2	60	.	NM_001134222	exon2	c.C612G	p.P204P	CTTGTCGGGACTC	.	PASS	Atlas-SNP
ITIH4	3700	hgsc.bcm.edu	37	3	52860816	52860816	+	Silent	SNP	C	C	T	rs2276816	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	45	115	0	0.401786	0	C|0.919;T|0.081	0.081	strong	.	ITIH4	74	.	NM_001166449	exon4	c.G510A	p.K170K	CAGGTGCTTGACC	.	PASS	Atlas-SNP
ZNF449	203523	hgsc.bcm.edu	37	X	134494878	134494878	+	Silent	SNP	C	C	T	rs141878135	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	69	127	0	0.985714	0	C|0.999;T|0.001	0.001	strong	.	ZNF449	68	.	NM_152695	exon5	c.C1434T	p.L478L	AAGCCTCGTTATT	.	PASS	Atlas-SNP
ZNF782	158431	hgsc.bcm.edu	37	9	99581568	99581568	+	Missense_Mutation	SNP	T	T	C	rs34763627	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	50	67	0	0.543478	0	T|0.930;C|0.070	0.070	strong	.	ZNF782	64	.	NM_001001662	exon6	c.A737G	p.N246S	AATTTATTGAAAT	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60897487	60897487	+	Missense_Mutation	SNP	C	C	T	rs2274934	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	44	64	0	0.517647	0	C|0.463;T|0.537	0.537	strong	.	LAMA5	268	.	NM_005560	exon47	c.G6184A	p.D2062N	AGCCATCGAAACC	.	PASS	Atlas-SNP
CDCA2	157313	hgsc.bcm.edu	37	8	25364331	25364331	+	Missense_Mutation	SNP	G	G	A	rs4872318	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	20	45	0	0.454545	0	G|0.761;A|0.239	0.239	strong	.	CDCA2	78	.	NM_152562	exon15	c.G2149A	p.V717I	GCTTCTGTAACTG	.	PASS	Atlas-SNP
SLC7A2	6542	hgsc.bcm.edu	37	8	17396415	17396415	+	Missense_Mutation	SNP	G	G	C	rs13259978	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	63	80	0	0.677419	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
MLF1IP	79682	hgsc.bcm.edu	37	4	185634144	185634144	+	Missense_Mutation	SNP	T	T	C	rs4616798	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	24	59	0	0.4	0	T|0.826;C|0.174	0.174	strong	.	MLF1IP	33	.	NM_024629	exon7	c.A642G	p.I214M	ATGAGATATCTTC	.	PASS	Atlas-SNP
PARP9	83666	hgsc.bcm.edu	37	3	122259606	122259606	+	Missense_Mutation	SNP	T	T	C	rs9851180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	114	284	0	0.471074	0	T|0.466;C|0.534	0.534	strong	PARP9,NS,carcinoma,-1,1	PARP9	72	1	NM_031458	exon8	c.A1583G	p.Y528C	GCCTCATACATCT	.	PASS	Atlas-SNP
RPAP1	26015	hgsc.bcm.edu	37	15	41829230	41829230	+	Silent	SNP	A	A	G	rs721772	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	106	121	1	1	0.00826446	A|0.592;G|0.408	0.408	strong	.	RPAP1	111	.	NM_015540	exon2	c.T94C	p.L32L	TCACCAACTGCAC	.	PASS	Atlas-SNP
SETD8	387893	hgsc.bcm.edu	37	12	123892235	123892235	+	Silent	SNP	G	G	A	rs61955128	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	3	73	1	0.04	0.0136986	G|0.999;A|0.001	0.001	strong	SETD8,NS,neuroblastoma,0,1	SETD8	35	1	NM_020382	exon8	c.G1044A	p.P348P	CCACCCGTGGCTG	.	scavenged	Atlas-SNP
OR52K1	390036	hgsc.bcm.edu	37	11	4510587	4510587	+	Missense_Mutation	SNP	C	C	T	rs331510	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	129	280	0	0.467391	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
RNF133	168433	hgsc.bcm.edu	37	7	122338071	122338071	+	Missense_Mutation	SNP	A	A	G	rs113127267	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	69	120	0	0.514925	0	A|0.997;G|0.003	0.003	strong	.	RNF133	41	.	NM_139175	exon1	c.T902C	p.L301P	ACTTTAAGAATAT	.	PASS	Atlas-SNP
DENND1B	163486	hgsc.bcm.edu	37	1	197480986	197480986	+	Missense_Mutation	SNP	C	C	T	rs10494755	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	291	131	250	1	0.450172	0.004	C|0.936;T|0.064	0.064	strong	.	DENND1B	108	.	NM_001195215	exon22	c.G1687A	p.G563S	TTTCACCTGAGTA	.	PASS	Atlas-SNP
ENPP3	5169	hgsc.bcm.edu	37	6	131995313	131995313	+	Silent	SNP	A	A	G	rs9493048	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	44	115	0	0.407407	0	A|0.740;G|0.260	0.260	strong	.	ENPP3	117	.	NM_005021	exon8	c.A654G	p.P218P	GTATCCAGAGTCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	62	105	0	0.659574	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
PCDHB15	56121	hgsc.bcm.edu	37	5	140626566	140626566	+	Missense_Mutation	SNP	A	A	C	rs618506	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	112	141	0	0.682927	0	A|0.815;C|0.185	0.185	strong	.	PCDHB15	138	.	NM_018935	exon1	c.A1420C	p.S474R	AGTGTCAGCGCCA	.	PASS	Atlas-SNP
ERO1LB	56605	hgsc.bcm.edu	37	1	236413230	236413230	+	Missense_Mutation	SNP	T	T	A	rs2477599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	104	126	0	0.990476	0	T|0.570;A|0.430	0.430	strong	.	ERO1LB	48	.	NM_019891	exon5	c.A386T	p.D129V	TCACAATCTTCTA	.	PASS	Atlas-SNP
NRXN2	9379	hgsc.bcm.edu	37	11	64457892	64457892	+	Missense_Mutation	SNP	G	G	A	rs141807338	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	48	109	0	0.539326	0	G|1.000;A|0.000	0.000	strong	.	NRXN2	247	.	NM_015080	exon5	c.C835T	p.H279Y	GCTGGTGCACATC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	58	103	0	0.666667	0	A|0.435;G|0.565	0.565	strong	.	PERP	15	.	NM_022121	exon3	c.T492C	p.I164I	ACAGCCAATCAGG	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147480955	147480955	+	Missense_Mutation	SNP	A	A	G	rs2303067	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	270	269	285	0	0.996296	0	A|0.569;G|0.431	0.431	strong	.	SPINK5	245	.	NM_001127699	exon14	c.A1258G	p.K420E	GAAGGTAAATCAA	.	PASS	Atlas-SNP
ZNF554	115196	hgsc.bcm.edu	37	19	2833802	2833802	+	Missense_Mutation	SNP	A	A	G	rs867168	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	74	130	0	0.587302	0	A|0.773;G|0.227	0.227	strong	.	ZNF554	47	.	NM_001102651	exon5	c.A569G	p.E190G	AGTTAGAGGACAG	.	PASS	Atlas-SNP
ADCY4	196883	hgsc.bcm.edu	37	14	24803710	24803710	+	Missense_Mutation	SNP	G	G	A	rs77202343	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	14	9	26	0	0.642857	0	G|0.987;A|0.013	0.013	strong	.	ADCY4	86	.	NM_001198592	exon2	c.C149T	p.A50V	CCGCTGGCCCAGG	.	PASS	Atlas-SNP
MFSD12	126321	hgsc.bcm.edu	37	19	3548231	3548231	+	Missense_Mutation	SNP	A	A	G	rs2240751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	42	122	0	0.461538	0	A|0.872;G|0.128	0.128	strong	MFSD12,NS,carcinoma,0,2	MFSD12	22	2	NM_001042680	exon3	c.T544C	p.Y182H	CGCCGTAGACGGT	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84848596	84848596	+	Missense_Mutation	SNP	G	G	A	rs61733547	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	80	157	0	0.470588	0	G|0.971;A|0.029	0.029	strong	.	DNAH6	194	.	NM_001370	exon26	c.G3992A	p.R1331H	GGTGCCGTGATTT	.	PASS	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	37	19	11327626	11327626	+	Silent	SNP	A	A	G	rs4804152	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	251	268	1	0.996032	0.00373134	A|0.394;G|0.606	0.606	strong	.	DOCK6	104	.	NM_020812	exon30	c.T3858C	p.D1286D	CAGCAAATCCAAC	.	PASS	Atlas-SNP
ULK3	25989	hgsc.bcm.edu	37	15	75130093	75130093	+	Missense_Mutation	SNP	T	T	C	rs12898397	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	33	81	0	0.485294	0	T|0.596;C|0.404	0.404	strong	.	ULK3	30	.	NM_001099436	exon14	c.A1334G	p.K445R	CCCACCTTGACCT	.	PASS	Atlas-SNP
TUBGCP5	114791	hgsc.bcm.edu	37	15	22840279	22840279	+	Silent	SNP	G	G	T	rs61744212	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	89	129	0	0.517442	0	A|0.001;G|0.893;T|0.106	0.106	strong	.	TUBGCP5	82	.	NM_052903	exon4	c.G345T	p.L115L	TCTTCTGTGTCTG	.	PASS	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5442790	5442790	+	Missense_Mutation	SNP	C	C	T	rs61754791	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	34	83	0	0.441558	0	A|0.000;C|0.986;T|0.014	0.014	strong	.	NLRP1	358	.	NM_033007	exon7	c.G2815A	p.V939M	GTCGCACGCCAAC	.	PASS	Atlas-SNP
BMP8B	656	hgsc.bcm.edu	37	1	40229393	40229393	+	Silent	SNP	G	G	A	rs77290565	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	23	175	0	0.117949	0	G|0.968;A|0.032	0.032	strong	PPIE_ENST00000356511,brain,glioma,+1,1	BMP8B	20	1	NM_001720	exon5	c.C939T	p.L313L	CCAGCCGAGGTCC	.	scavenged	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	20117232	20117232	+	Silent	SNP	T	T	C	rs2289566	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	278	124	240	0	0.446043	0	T|0.656;C|0.344	0.344	strong	.	NAV2	255	.	NM_001244963	exon32	c.T6108C	p.H2036H	ACCACATCTCTTT	.	PASS	Atlas-SNP
MGAT5B	146664	hgsc.bcm.edu	37	17	74942478	74942478	+	Silent	SNP	C	C	T	rs8067984	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	33	55	0	0.44	0	C|0.639;T|0.361	0.361	strong	.	MGAT5B	98	.	NM_198955	exon14	c.C1896T	p.Y632Y	ACCCTACGAGTAC	.	PASS	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21232195	21232195	+	Silent	SNP	G	G	A	rs693	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	87	169	0	0.480663	0	G|0.665;N|0.000	.	strong	.	APOB	761	.	NM_000384	exon26	c.C7545T	p.T2515T	TTCTAGGGTCTCT	.	PASS	Atlas-SNP
SENP6	26054	hgsc.bcm.edu	37	6	76344431	76344431	+	Missense_Mutation	SNP	C	C	T	rs17414086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	24	62	0	0.533333	0	C|0.803;N|0.000	.	strong	.	SENP6	189	.	NM_001100409	exon5	c.C362T	p.T121M	AAAATACGCAAAA	.	PASS	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	37	2	228883029	228883029	+	Missense_Mutation	SNP	A	A	C	rs3811515	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	372	167	330	0	0.448925	0	A|0.784;C|0.216	0.216	strong	SPHKAP,NS,carcinoma,0,1	SPHKAP	750	1	NM_030623	exon7	c.T2541G	p.H847Q	ACTGTGATGAGGG	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745677	50745677	+	Silent	SNP	T	T	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	11	159	0	0.0650888	0	.	.	none	FAM186A_ENST00000327337,rectum,carcinoma,0,4	FAM186A	181	4	NM_001145475	exon4	c.A4938T	p.A1646A	TCCCAGTGCCTGG	.	PASS	Atlas-SNP
OCA2	4948	hgsc.bcm.edu	37	15	28230318	28230318	+	Missense_Mutation	SNP	C	C	T	rs1800407	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	52	86	0	0.565217	0	C|0.952;T|0.048	0.048	strong	.	OCA2	173	.	NM_000275	exon13	c.G1256A	p.R419Q	CGTCCCCGGGAGA	.	PASS	Atlas-SNP
NAT14	57106	hgsc.bcm.edu	37	19	55998317	55998317	+	Missense_Mutation	SNP	C	C	A	rs118182626	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	8	7	4	0	0.875	0	C|0.978;A|0.022	0.022	strong	.	NAT14	11	.	NM_020378	exon3	c.C615A	p.D205E	CAAAGACCTGTGA	.	PASS	Atlas-SNP
CEACAM20	125931	hgsc.bcm.edu	37	19	45017249	45017249	+	Missense_Mutation	SNP	T	T	C	rs1465723	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	45	81	0	0.45	0	T|0.864;C|0.136	0.136	strong	.	CEACAM20	31	.	NM_001102600	exon7	c.A1409G	p.Y470C	CTGATGTAGAGAA	.	PASS	Atlas-SNP
RPN2	6185	hgsc.bcm.edu	37	20	35852309	35852309	+	Missense_Mutation	SNP	G	G	A	rs117475222	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	67	85	0	0.527559	0	G|0.988;A|0.012	0.012	strong	.	RPN2	45	.	NM_002951	exon10	c.G1121A	p.G374D	AAGTTGGCATCAC	.	PASS	Atlas-SNP
OR8D4	338662	hgsc.bcm.edu	37	11	123777302	123777302	+	Missense_Mutation	SNP	T	T	G	rs17127947	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	236	97	231	0	0.411017	0	G|0.199;N|0.000	0.199	strong	OR8D4,NS,carcinoma,0,1	OR8D4	62	1	NM_001005197	exon1	c.T164G	p.L55R	GTCAACTTCATAC	.	PASS	Atlas-SNP
HIVEP1	3096	hgsc.bcm.edu	37	6	12120445	12120445	+	Silent	SNP	A	A	G	rs2228215	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	106	85	0	1	0	A|0.745;C|0.002	.	strong	.	HIVEP1	242	.	NM_002114	exon4	c.A417G	p.Q139Q	GCAGCAACCATCT	.	PASS	Atlas-SNP
CSF2RB	1439	hgsc.bcm.edu	37	22	37333794	37333794	+	Silent	SNP	A	A	G	rs131840	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	67	68	0	0.985294	0	A|0.198;G|0.802	0.802	strong	.	CSF2RB	104	.	NM_000395	exon14	c.A1944G	p.P648P	GGGACCAGGACAG	.	PASS	Atlas-SNP
STAT1	6772	hgsc.bcm.edu	37	2	191874667	191874667	+	Silent	SNP	A	A	G	rs2066802	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	92	217	0	0.453202	0	A|0.909;G|0.091	0.091	strong	.	STAT1	93	.	NM_007315	exon3	c.T63C	p.L21L	ATCATAAAGCTGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	82	163	0	0.493976	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
UGT1A6	54578	hgsc.bcm.edu	37	2	234602202	234602202	+	Missense_Mutation	SNP	A	A	C	rs1105879	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	89	182	0	0.532934	0	A|0.682;C|0.318	0.318	strong	.	UGT1A6	63	.	NM_001072	exon1	c.A552C	p.R184S	CAGCAGAAGCCCA	.	PASS	Atlas-SNP
CCNB3	85417	hgsc.bcm.edu	37	X	50085217	50085217	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	26	166	0	0.298851	0	.	.	none	.	CCNB3	367	.	NM_033031	exon8	c.C3533T	p.T1178I	AGATGACCCATGA	.	PASS	Atlas-SNP
PRUNE2	158471	hgsc.bcm.edu	37	9	79321871	79321871	+	Silent	SNP	C	C	T	rs577993	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	373	194	387	0	0.520107	0	C|0.473;T|0.527	0.527	strong	PRUNE2_ENST00000376718,colon,carcinoma,-1,1	PRUNE2	331	1	NM_015225	exon8	c.G5319A	p.T1773T	AGTCTCCGTTAAT	.	PASS	Atlas-SNP
SLC44A5	204962	hgsc.bcm.edu	37	1	75702674	75702674	+	Silent	SNP	G	G	A	rs17096508	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	310	185	413	1	0.596774	0.00242131	G|0.845;A|0.155	0.155	strong	.	SLC44A5	231	.	NM_152697	exon11	c.C738T	p.L246L	TTACATGAGAATC	.	PASS	Atlas-SNP
RFXAP	5994	hgsc.bcm.edu	37	13	37393904	37393904	+	Missense_Mutation	SNP	T	T	C	rs193240312	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	19	71	0	0.633333	0	T|0.993;C|0.007	0.007	strong	RFXAP,NS,carcinoma,0,1	RFXAP	14	1	NM_000538	exon1	c.T410C	p.M137T	GCAGCATGAGCAA	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204932	56204932	+	Missense_Mutation	SNP	T	T	G	rs3809973	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	64	214	0	0.418301	0	T|0.534;G|0.466	0.466	strong	.	ALPK2	487	.	NM_052947	exon5	c.A2487C	p.K829N	CGAATATTTATCA	.	PASS	Atlas-SNP
ZNF146	7705	hgsc.bcm.edu	37	19	36727365	36727365	+	Missense_Mutation	SNP	G	G	A	rs2070132	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	41	91	0	0.465909	0	G|0.622;A|0.378	0.378	strong	.	ZNF146	32	.	NM_001099638	exon3	c.G23A	p.R8K	AGCAGAGAATTTA	.	PASS	Atlas-SNP
CWC27	10283	hgsc.bcm.edu	37	5	64273018	64273018	+	Silent	SNP	G	G	A	rs1309581	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	240	258	0	0.991736	0	G|0.631;A|0.369	0.369	strong	.	CWC27	47	.	NM_005869	exon13	c.G1209A	p.T403T	TGAAACGCCTGAA	.	PASS	Atlas-SNP
ARMC3	219681	hgsc.bcm.edu	37	10	23290952	23290952	+	Silent	SNP	C	C	T	rs12259839	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	94	170	0	0.47	0	C|0.920;T|0.080	0.080	strong	.	ARMC3	102	.	NM_173081	exon12	c.C1530T	p.D510D	TGGTGACGAGCTG	.	PASS	Atlas-SNP
IPO7	10527	hgsc.bcm.edu	37	11	9450115	9450115	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	246	3	207	0	0.0121951	0	.	.	none	IPO7,NS,carcinoma,-1,1	IPO7	72	1	NM_006391	exon13	c.A1364G	p.Y455C	TGGAATACATGTT	.	scavenged	Atlas-SNP
ATP6V0A2	23545	hgsc.bcm.edu	37	12	124210782	124210782	+	Silent	SNP	T	T	C	rs1399961	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	52	97	0	0.52	0	T|0.317;C|0.683	0.683	strong	.	ATP6V0A2	68	.	NM_012463	exon5	c.T471C	p.S157S	AGAGAGTGATTCT	.	PASS	Atlas-SNP
MATN3	4148	hgsc.bcm.edu	37	2	20202929	20202929	+	Silent	SNP	C	C	T	rs28452699	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	70	126	0	0.510949	0	C|0.827;T|0.173	0.173	strong	.	MATN3	28	.	NM_002381	exon3	c.G909A	p.T303T	TGAACACGTTTTC	.	PASS	Atlas-SNP
CCP110	9738	hgsc.bcm.edu	37	16	19548461	19548461	+	Silent	SNP	C	C	T	rs62000395	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	56	108	0	0.486957	0	C|0.961;T|0.039	0.039	strong	.	CCP110	57	.	NM_001199022	exon4	c.C1470T	p.G490G	GAGAGGCGCACAC	.	PASS	Atlas-SNP
CDHR3	222256	hgsc.bcm.edu	37	7	105665004	105665004	+	Missense_Mutation	SNP	C	C	A	rs117406926	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	68	106	0	0.515152	0	C|0.995;A|0.005	0.005	strong	.	CDHR3	153	.	NM_152750	exon15	c.C2254A	p.P752T	AAGGAACCTCTGT	.	PASS	Atlas-SNP
TCTE1	202500	hgsc.bcm.edu	37	6	44255459	44255459	+	Missense_Mutation	SNP	G	G	A	rs324146	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	694	377	633	1	0.543228	0.00157978	G|0.304;A|0.696	0.696	strong	.	TCTE1	77	.	NM_182539	exon2	c.C104T	p.P35L	AGCTGTGGGCTTG	.	PASS	Atlas-SNP
SPEF2	79925	hgsc.bcm.edu	37	5	35705844	35705844	+	Missense_Mutation	SNP	A	A	C	rs72738833	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	222	132	185	0	0.594595	0	A|0.974;C|0.026	0.026	strong	SPEF2_ENST00000356031,colon,carcinoma,-2,1	SPEF2	324	1	NM_024867	exon18	c.A2599C	p.K867Q	ATAGATAAGGAAT	.	PASS	Atlas-SNP
USP53	54532	hgsc.bcm.edu	37	4	120214030	120214030	+	Missense_Mutation	SNP	T	T	G	rs3749591	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	96	123	0	1	0	T|0.725;G|0.275	0.275	strong	USP53,NS,carcinoma,0,1	USP53	69	1	NM_019050	exon18	c.T2886G	p.S962R	GCACAGTTTAAGT	.	PASS	Atlas-SNP
KCTD9	54793	hgsc.bcm.edu	37	8	25287397	25287397	+	Silent	SNP	T	T	C	rs1812594	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	546	267	591	0	0.489011	0	T|0.828;C|0.172	0.172	strong	.	KCTD9	33	.	NM_017634	exon12	c.A1146G	p.L382L	CATGTGTAGTGGT	.	PASS	Atlas-SNP
PSG5	5673	hgsc.bcm.edu	37	19	43680269	43680269	+	Missense_Mutation	SNP	G	G	C	rs55992450		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	31	111	0	0.326316	0	.	.	weak	.	PSG5	58	.	NM_002781	exon3	c.C462G	p.N154K	TGAGTTGTTGATG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	41	38	0	1	0	C|0.745;T|0.255	0.255	strong	.	WSCD2	125	.	NM_014653	exon5	c.C797T	p.T266I	TCTGCACTGAGAA	.	PASS	Atlas-SNP
QSOX1	5768	hgsc.bcm.edu	37	1	180148012	180148012	+	Missense_Mutation	SNP	G	G	C	rs17855475	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	70	100	0	0.614035	0	G|0.866;C|0.134	0.134	strong	.	QSOX1	79	.	NM_002826	exon5	c.G599C	p.G200A	ACCTGGGTAGAGA	.	PASS	Atlas-SNP
CDH15	1013	hgsc.bcm.edu	37	16	89259993	89259993	+	Silent	SNP	A	A	G	rs3815615	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	40	84	0	0.421053	0	A|0.565;G|0.435	0.435	strong	.	CDH15	54	.	NM_004933	exon12	c.A1971G	p.Q657Q	TGAGCAAGGAGGC	.	PASS	Atlas-SNP
C4A	720	hgsc.bcm.edu	37	6	31996966	31996966	+	Missense_Mutation	SNP	G	G	A	rs2746414	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	75	276	0	0.308642	0	G|0.716;A|0.284	0.284	strong	.	C4A	15	.	NM_007293	exon28	c.G3527A	p.S1176N	AGGCAAGCTCATT	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140187102	140187102	+	Silent	SNP	A	A	G	rs74726650		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	52	170	0	0.320988	0	.	.	weak	.	PCDHA4	419	.	NM_031500	exon1	c.A330G	p.V110V	GATCGTAGACAGG	.	PASS	Atlas-SNP
SLC27A6	28965	hgsc.bcm.edu	37	5	128301971	128301971	+	Silent	SNP	T	T	C	rs2577541	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	97	201	0	0.487437	0	T|0.719;C|0.281	0.281	strong	.	SLC27A6	112	.	NM_001017372	exon1	c.T141C	p.Y47Y	GAAGTATGAAAAG	.	PASS	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	116800	116800	+	Missense_Mutation	SNP	C	C	G	rs79220013	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	131	140	1	0.577093	0.00714286	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
HLA-A	3105	hgsc.bcm.edu	37	6	29913037	29913037	+	Missense_Mutation	SNP	G	G	A	rs1137631	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	308	71	280	0	0.230519	0	G|0.829;A|0.171	0.171	strong	HLA-A,caecum,carcinoma,0,1	HLA-A	89	1	NM_001242758	exon7	c.G1072A	p.V358M	TCTGATGTGTCCC	.	PASS	Atlas-SNP
CCDC88C	440193	hgsc.bcm.edu	37	14	91883129	91883129	+	Silent	SNP	G	G	A	rs45437097	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	57	135	0	0.431818	0	G|0.855;A|0.145	0.145	strong	.	CCDC88C	192	.	NM_001080414	exon2	c.C114T	p.Y38Y	ATCCATGTACATA	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150945483	150945483	+	Missense_Mutation	SNP	C	C	T	rs3734055	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	53	126	0	0.333333	0	C|0.544;T|0.456	0.456	strong	.	FAT2	465	.	NM_001447	exon1	c.G3010A	p.G1004S	TCCCACCATCACT	.	PASS	Atlas-SNP
KHNYN	23351	hgsc.bcm.edu	37	14	24901249	24901249	+	Missense_Mutation	SNP	A	A	C	rs3742520	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	96	223	0	0.457143	0	A|0.599;C|0.401	0.401	strong	KHNYN,rectum,carcinoma,0,1	KHNYN	46	1	NM_015299	exon3	c.A782C	p.K261T	GAGGGAAACAGGG	.	PASS	Atlas-SNP
CLCA1	1179	hgsc.bcm.edu	37	1	86947975	86947975	+	Silent	SNP	A	A	T	rs1321694	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	175	232	0	1	0	T|0.353;N|0.000	0.353	strong	.	CLCA1	109	.	NM_001285	exon5	c.A645T	p.V215V	TAAAGTAACAGGA	.	PASS	Atlas-SNP
ACAP1	9744	hgsc.bcm.edu	37	17	7245371	7245371	+	Silent	SNP	A	A	G	rs4796407	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	43	96	0	0.43	0	A|0.642;G|0.358	0.358	strong	.	ACAP1	66	.	NM_014716	exon3	c.A216G	p.P72P	TCCACCAGAGCCC	.	PASS	Atlas-SNP
ZIM3	114026	hgsc.bcm.edu	37	19	57648277	57648277	+	Missense_Mutation	SNP	A	A	T	rs4801200	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	120	236	1	0.465116	0.00423729	A|0.564;T|0.436	0.436	strong	.	ZIM3	107	.	NM_052882	exon4	c.T205A	p.L69M	CCTCCAACCATGG	.	PASS	Atlas-SNP
ALOX12	239	hgsc.bcm.edu	37	17	6905061	6905061	+	Silent	SNP	T	T	G	rs1042357	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	42	73	0	0.531646	0	T|0.431;G|0.569	0.569	strong	.	ALOX12	49	.	NM_000697	exon8	c.T1092G	p.T364T	GAACACTCACCTG	.	PASS	Atlas-SNP
MCTP1	79772	hgsc.bcm.edu	37	5	94050487	94050487	+	Silent	SNP	T	T	A	rs2636	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	24	51	0	0.40678	0	T|0.597;N|0.000	.	strong	.	MCTP1	110	.	NM_024717	exon20	c.A2715T	p.I905I	CTTCTTTATCCTT	.	PASS	Atlas-SNP
MYBPHL	343263	hgsc.bcm.edu	37	1	109840169	109840169	+	Missense_Mutation	SNP	C	C	T	rs76186504	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	44	132	0	0.363636	0	C|0.986;T|0.014	0.014	strong	.	MYBPHL	28	.	NM_001265613	exon3	c.G305A	p.R102Q	CCATTCCGCACAC	.	PASS	Atlas-SNP
HPS4	89781	hgsc.bcm.edu	37	22	26864577	26864577	+	Silent	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	88	142	0	0.505747	0	.	.	none	.	HPS4	123	.	NM_022081	exon8	c.C609G	p.T203T	GAGTTGGGTGCTG	.	PASS	Atlas-SNP
UGT1A7	54577	hgsc.bcm.edu	37	2	234591205	234591205	+	Missense_Mutation	SNP	T	T	C	rs11692021	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	360	196	331	0	0.544444	0	T|0.683;C|0.317	0.317	strong	.	UGT1A7	74	.	NM_019077	exon1	c.T622C	p.W208R	AGAGTATGGAACC	.	PASS	Atlas-SNP
C6orf165	154313	hgsc.bcm.edu	37	6	88173748	88173748	+	Missense_Mutation	SNP	G	G	A	rs139574881	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	13	45	0	0.419355	0	G|0.999;A|0.001	0.001	strong	.	C6orf165	116	.	NM_001031743	exon13	c.G1649A	p.R550H	ATTTGCGCCAGAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	25	69	0	0.454545	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
KRT76	51350	hgsc.bcm.edu	37	12	53166603	53166603	+	Silent	SNP	T	T	C	rs61730600	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	26	72	0	0.4	0	T|0.962;C|0.038	0.038	strong	.	KRT76	72	.	NM_015848	exon4	c.A936G	p.T312T	TTCATCTGTCAGG	.	PASS	Atlas-SNP
RPS6KA2	6196	hgsc.bcm.edu	37	6	167271716	167271716	+	Missense_Mutation	SNP	T	T	C	rs9347162	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224	221	228	0	0.986607	0	T|0.395;C|0.605	0.605	strong	.	RPS6KA2	212	.	NM_001006932	exon2	c.A95G	p.E32G	GTGGGCTCCACAT	.	PASS	Atlas-SNP
PRKCI	5584	hgsc.bcm.edu	37	3	169988286	169988286	+	Silent	SNP	C	C	T	rs56257047	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	120	98	0	1	0	C|0.886;T|0.114	0.114	strong	.	PRKCI	82	.	NM_002740	exon6	c.C528T	p.L176L	CAAACTCTTGGTT	.	PASS	Atlas-SNP
ACTR8	93973	hgsc.bcm.edu	37	3	53906513	53906513	+	Silent	SNP	G	G	A	rs4687757	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	63	120	0	0.440559	0	G|0.411;A|0.589	0.589	strong	.	ACTR8	56	.	NM_022899	exon10	c.C1200T	p.I400I	TCCAACGATTCCA	.	PASS	Atlas-SNP
PTBP2	58155	hgsc.bcm.edu	37	1	97272456	97272456	+	Silent	SNP	A	A	G	rs6699932	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	41	143	0	0.532468	0	A|0.707;G|0.293	0.293	strong	.	PTBP2	62	.	NM_021190	exon11	c.A1113G	p.L371L	GATTTTATACAAT	.	PASS	Atlas-SNP
IGSF10	285313	hgsc.bcm.edu	37	3	151154666	151154666	+	Silent	SNP	T	T	C	rs2172250	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	137	149	0	1	0	T|0.152;C|0.848	0.848	strong	.	IGSF10	279	.	NM_178822	exon6	c.A7683G	p.T2561T	CTCCCATGTGATT	.	PASS	Atlas-SNP
KIF4B	285643	hgsc.bcm.edu	37	5	154395458	154395458	+	Missense_Mutation	SNP	G	G	A	rs17116710	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	226	135	229	0	0.597345	0	G|0.829;A|0.171	0.171	strong	.	KIF4B	307	.	NM_001099293	exon1	c.G2039A	p.R680H	GAGACCGTAAGAG	.	PASS	Atlas-SNP
NLRP13	126204	hgsc.bcm.edu	37	19	56423254	56423254	+	Silent	SNP	G	G	A	rs304002	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	94	171	0	0.502674	0	G|0.472;A|0.528	0.528	strong	NLRP13,NS,carcinoma,0,1	NLRP13	220	1	NM_176810	exon5	c.C1929T	p.H643H	GGACTCGTGTAGG	.	PASS	Atlas-SNP
NADSYN1	55191	hgsc.bcm.edu	37	11	71191817	71191817	+	Missense_Mutation	SNP	C	C	T	rs7121106	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	56	102	0	0.622222	0	C|0.919;T|0.081	0.081	strong	.	NADSYN1	48	.	NM_018161	exon11	c.C890T	p.P297L	CGAGCCCCTACCC	.	PASS	Atlas-SNP
ADAM20	8748	hgsc.bcm.edu	37	14	70990595	70990595	+	Missense_Mutation	SNP	C	C	T	rs143287090	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	57	77	0	0.6	0	C|0.998;T|0.002	0.002	strong	.	ADAM20	59	.	NM_003814	exon2	c.G1030A	p.D344N	CAACATCATGTTG	.	PASS	Atlas-SNP
NLRP13	126204	hgsc.bcm.edu	37	19	56423893	56423893	+	Silent	SNP	G	G	A	rs303998	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	63	132	0	0.533898	0	G|0.379;A|0.621	0.621	strong	NLRP13,NS,malignant_melanoma,-1,1	NLRP13	220	1	NM_176810	exon5	c.C1290T	p.T430T	ACATACGGTCCAA	.	PASS	Atlas-SNP
FN3KRP	79672	hgsc.bcm.edu	37	17	80684784	80684784	+	Missense_Mutation	SNP	G	G	A	rs142718764	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	85	96	0	0.620438	0	G|0.987;A|0.013	0.013	strong	FN3KRP,NS,lymphoid_neoplasm,0,2	FN3KRP	31	2	NM_024619	exon6	c.G667A	p.V223I	GGAAACGTAGCAG	.	PASS	Atlas-SNP
EDEM3	80267	hgsc.bcm.edu	37	1	184675814	184675814	+	Silent	SNP	G	G	A	rs1062994	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	146	146	0	1	0	G|0.693;A|0.307	0.307	strong	.	EDEM3	63	.	NM_025191	exon18	c.C2166T	p.N722N	CTGGATGTTGCGT	.	PASS	Atlas-SNP
PABPN1L	390748	hgsc.bcm.edu	37	16	88932857	88932857	+	Missense_Mutation	SNP	T	T	C	rs139390142	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	52	98	0	0.490566	0	T|0.996;C|0.004	0.004	strong	.	PABPN1L	25	.	NM_001080487	exon1	c.A158G	p.E53G	TCTTCCTCCTCTT	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130877790	130877790	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	506	5	411	0	0.00988142	0	.	.	none	POTEF,colon,carcinoma,-1,4	POTEF	140	4	NM_001099771	exon3	c.A299G	p.K100R	CACCACTTGCCCA	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515340	195515340	+	Silent	SNP	G	G	A	rs79661483	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	123	485	0	0.745455	0	G|0.628;A|0.372	0.372	strong	.	MUC4	1505	.	NM_018406	exon2	c.C3111T	p.H1037H	GGTGACGTGACCT	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4576195	4576195	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	19	141	0	0.147287	0	.	.	none	PELP1_ENST00000301396,NS,carcinoma,-1,3	PELP1	102	3	NM_014389	exon16	c.G2091A	p.S697S	GCGTGCCGAGGGC	.	PASS	Atlas-SNP
ZNF735	730291	hgsc.bcm.edu	37	7	63680098	63680098	+	Silent	SNP	C	C	T	rs4479992	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	49	98	0	0.453704	0	C|0.803;T|0.197	0.197	strong	.	.	.	.	NM_001159524	exon4	c.C669T	p.N223N	CTTTAACCACTCC	.	PASS	Atlas-SNP
SDK2	54549	hgsc.bcm.edu	37	17	71410891	71410891	+	Silent	SNP	C	C	T	rs12386051	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	33	60	0	0.478261	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
TIAM1	7074	hgsc.bcm.edu	37	21	32493031	32493031	+	Silent	SNP	A	A	G	rs762194	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	34	56	0	0.548387	0	A|0.482;G|0.518	0.518	strong	.	TIAM1	522	.	NM_003253	exon29	c.T4431C	p.G1477G	GTCCCCACCACCG	.	PASS	Atlas-SNP
VARS	7407	hgsc.bcm.edu	37	6	31750509	31750509	+	Missense_Mutation	SNP	G	G	A	rs11531	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	76	101	0	0.66087	0	G|0.965;A|0.035	0.035	strong	.	VARS	76	.	NM_006295	exon15	c.C1876T	p.P626S	AAGGCGGAGGCAC	.	PASS	Atlas-SNP
TICRR	90381	hgsc.bcm.edu	37	15	90128966	90128966	+	Missense_Mutation	SNP	C	C	T	rs11629584	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	99	209	1	0.505102	0.00478469	C|0.601;T|0.399	0.399	strong	C15orf42,NS,carcinoma,0,1	.	.	1	NM_152259	exon4	c.C1204T	p.R402W	GAAGGCCGGCCCC	.	PASS	Atlas-SNP
TUBA8	51807	hgsc.bcm.edu	37	22	18609703	18609703	+	Missense_Mutation	SNP	C	C	T	rs140202346	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	96	142	0	0.551724	0	C|0.999;T|0.001	0.001	strong	.	TUBA8	36	.	NM_018943	exon4	c.C958T	p.R320W	CTCTACCGGGGCG	.	PASS	Atlas-SNP
PLRG1	5356	hgsc.bcm.edu	37	4	155459194	155459194	+	Silent	SNP	A	A	T	rs7668818	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	213	230	0	1	0	A|0.748;T|0.252	0.252	strong	.	PLRG1	43	.	NM_002669	exon13	c.T1218A	p.I406I	ATTTTGAATGAAA	.	PASS	Atlas-SNP
DEFB104B	503618	hgsc.bcm.edu	37	8	7694034	7694034	+	Missense_Mutation	SNP	A	A	G	rs2680507	bycluster;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	2137	424	2728	3	0.198409	0.00109971	A|0.250;G|0.750	0.750	weak	DEFB104A,NS,other,0,1	.	.	1	NM_001040702	exon1	c.A28G	p.I10V	TTAGCCATTTCTC	.	scavenged	Atlas-SNP
SFTPD	6441	hgsc.bcm.edu	37	10	81706324	81706324	+	Missense_Mutation	SNP	A	A	G	rs721917	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	116	161	0	0.644444	0	A|0.559;G|0.441	0.441	strong	SFTPD,NS,carcinoma,+1,1	SFTPD	43	1	NM_003019	exon2	c.T92C	p.M31T	CTGGGCATTGTTC	.	PASS	Atlas-SNP
DAGLB	221955	hgsc.bcm.edu	37	7	6456347	6456347	+	Silent	SNP	G	G	T	rs1055428	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	40	67	0	0.769231	0	G|0.843;T|0.157	0.157	strong	.	DAGLB	74	.	NM_139179	exon11	c.C1338A	p.G446G	CGCCCCGCCCCCG	.	PASS	Atlas-SNP
FSIP1	161835	hgsc.bcm.edu	37	15	39910404	39910404	+	Missense_Mutation	SNP	G	G	A	rs12908846	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	56	111	0	0.478632	0	G|0.862;A|0.138	0.138	strong	.	FSIP1	53	.	NM_152597	exon11	c.C1231T	p.L411F	CCAGAAGACACTT	.	PASS	Atlas-SNP
CTNNA2	1496	hgsc.bcm.edu	37	2	80646660	80646660	+	Silent	SNP	C	C	T	rs148134866	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	29	67	0	0.483333	0	C|0.998;T|0.002	0.002	strong	.	CTNNA2	462	.	NM_001164883	exon9	c.C1224T	p.S408S	AAAGAGCGGAAAT	.	PASS	Atlas-SNP
OR2W3	343171	hgsc.bcm.edu	37	1	248059712	248059712	+	Missense_Mutation	SNP	T	T	C	rs11204546	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	150	267	0	0.585938	0	T|0.469;C|0.531	0.531	strong	.	OR2W3	113	.	NM_001001957	exon1	c.T824C	p.M275T	TCCTCATGCTCTT	.	PASS	Atlas-SNP
DEPTOR	64798	hgsc.bcm.edu	37	8	120940652	120940652	+	Silent	SNP	C	C	T	rs16893299	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	27	68	0	0.490909	0	C|0.743;T|0.257	0.257	strong	.	DEPTOR	41	.	NM_022783	exon2	c.C135T	p.H45H	GCTGCACGAAGAA	.	PASS	Atlas-SNP
CCR6	1235	hgsc.bcm.edu	37	6	167550042	167550042	+	Silent	SNP	C	C	T	rs2071171	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	40	70	0	0.43956	0	C|0.443;T|0.557	0.557	strong	.	CCR6	36	.	NM_004367	exon3	c.C324T	p.T108T	TGCCACCGGTGCG	.	PASS	Atlas-SNP
SRMS	6725	hgsc.bcm.edu	37	20	62173562	62173562	+	Silent	SNP	G	G	T	rs56130722	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	98	191	0	0.507772	0	G|0.767;T|0.233	0.233	strong	SRMS,caecum,carcinoma,0,1	SRMS	48	1	NM_080823	exon5	c.C900A	p.I300I	CGTGACGATGTAC	.	PASS	Atlas-SNP
OR51B4	79339	hgsc.bcm.edu	37	11	5322520	5322520	+	Silent	SNP	G	G	A	rs12283334	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	39	77	0	0.458824	0	G|0.775;A|0.225	0.225	strong	.	OR51B4	64	.	NM_033179	exon1	c.C657T	p.L219L	TGTCTTGAGGATT	.	PASS	Atlas-SNP
SMARCC2	6601	hgsc.bcm.edu	37	12	56559415	56559415	+	Silent	SNP	C	C	T	rs116595430	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	78	142	0	0.52349	0	C|0.996;T|0.004	0.004	strong	.	SMARCC2	212	.	NM_139067	exon27	c.G2919A	p.A973A	CATCTCCGCATAC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	42	85	0	0.575342	0	A|0.890;T|0.110	0.110	strong	.	TCHH	275	.	NM_007113	exon3	c.T2368A	p.L790M	CCCGCAATGGGGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508500	195508500	+	Missense_Mutation	SNP	G	G	C	rs374619108		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	42	105	6	0.482759	0.0571429	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,6	MUC4	1505	6	NM_018406	exon2	c.C9951G	p.D3317E	GGAAGCGTCGGTG	.	scavenged	Atlas-SNP
FAM19A1	407738	hgsc.bcm.edu	37	3	68588002	68588002	+	Missense_Mutation	SNP	G	G	A	rs372722058		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	2	184	0	0.0103627	0	.	.	weak	FAM19A1_ENST00000478136,colon,carcinoma,0,2	FAM19A1	58	2	NM_213609	exon4	c.G355A	p.A119T	ATGTGCGCAACAG	.	scavenged	Atlas-SNP
VPS54	51542	hgsc.bcm.edu	37	2	64124722	64124722	+	Missense_Mutation	SNP	C	C	A	rs11558741	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	21	41	0	0.446809	0	T|0.031;G|0.176	.	strong	.	VPS54	57	.	NM_016516	exon22	c.G2736T	p.M912I	AAATAACATCTGA	.	PASS	Atlas-SNP
SALL2	6297	hgsc.bcm.edu	37	14	21993638	21993638	+	Missense_Mutation	SNP	G	G	C	rs2242527	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	124	260	0	0.469697	0	G|0.901;C|0.099	0.099	strong	.	SALL2	95	.	NM_005407	exon2	c.C224G	p.S75C	GCCGAAGAGTTGT	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84796603	84796603	+	Silent	SNP	A	A	G	rs12932018	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	30	67	0	0.517241	0	A|0.752;G|0.248	0.248	strong	.	USP10	51	.	NM_001272075	exon10	c.A1575G	p.Q525Q	TCGACAAGAAGAT	.	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	37	13	113481088	113481088	+	Silent	SNP	C	C	T	rs144248225	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	329	151	292	0	0.458967	0	C|0.990;T|0.010	0.010	strong	.	ATP11A	225	.	NM_032189	exon12	c.C1104T	p.V368V	CACGGTCGAGATG	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70190570	70190570	+	Missense_Mutation	SNP	C	C	T	rs141395281	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	50	96	0	0.26178	0	C|0.993;T|0.007	0.007	strong	.	PDPR	66	.	NM_017990	exon19	c.C2428T	p.R810C	CTGGAGCGCCACG	.	PASS	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525193	248525193	+	Missense_Mutation	SNP	C	C	T	rs77270073		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	750	314	1096	0	0.418667	0	.	.	weak	OR2T4,NS,carcinoma,-1,2	OR2T4	126	2	NM_001004696	exon1	c.C311T	p.A104V	ACATGGCGTACAT	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745791	50745791	+	Silent	SNP	C	C	G	rs144970699	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	80	172	2	0.329218	0.0116279	C|0.737;G|0.263	0.263	strong	FAM186A_ENST00000327337,NS,carcinoma,0,1	FAM186A	181	1	NM_001145475	exon4	c.G4824C	p.A1608A	AGCCTGCGCCTGC	.	scavenged	Atlas-SNP
TSHZ1	10194	hgsc.bcm.edu	37	18	72999359	72999359	+	Missense_Mutation	SNP	T	T	C	rs55679337	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	52	126	0	0.675325	0	A|0.000;C|0.274;G|0.000;T|0.725	0.274	strong	.	TSHZ1	104	.	NM_005786	exon2	c.T1862C	p.L621P	GCTCCCTGGCCAA	.	PASS	Atlas-SNP
MAMSTR	284358	hgsc.bcm.edu	37	19	49218111	49218111	+	Silent	SNP	G	G	T	rs33988101	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	85	134	0	0.602837	0	G|0.621;T|0.379	0.379	strong	.	MAMSTR	36	.	NM_001130915	exon6	c.C480A	p.P160P	TGGGGGGGGCGAG	.	PASS	Atlas-SNP
GPR153	387509	hgsc.bcm.edu	37	1	6313938	6313938	+	Missense_Mutation	SNP	C	C	T	rs12735670	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	11	25	0	0.458333	0	C|0.308;T|0.692	0.692	strong	.	GPR153	44	.	NM_207370	exon3	c.G626A	p.R209H	GCGCGGCGGTCGG	.	PASS	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28619920	28619920	+	Silent	SNP	A	A	G	rs1126446	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	642	185	189	1	0.288162	0.00529101	A|0.735;G|0.265	0.265	strong	SULT1A1,caecum,carcinoma,-2,2	SULT1A1	53	2	NM_177534	exon2	c.T153C	p.T51T	CCAGGTAGTGCCT	.	scavenged	Atlas-SNP
GALP	85569	hgsc.bcm.edu	37	19	56694505	56694505	+	Silent	SNP	C	C	T	rs575756	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	116	224	0	0.449612	0	C|0.685;N|0.001	.	strong	.	GALP	13	.	NM_033106	exon5	c.C219T	p.D73D	TCTAGACGGGCTC	.	PASS	Atlas-SNP
SYT14	255928	hgsc.bcm.edu	37	1	210273710	210273710	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	272	4	233	0	0.0147059	0	.	.	none	SYT14,NS,carcinoma,+2,1	SYT14	89	1	NM_001146264	exon7	c.A1203G	p.E401E	AAAAGAAAAGATT	.	scavenged	Atlas-SNP
ZNF587	84914	hgsc.bcm.edu	37	19	58370727	58370727	+	Missense_Mutation	SNP	T	T	G	rs77825740	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	88	215	0	0.359184	0	T|0.707;G|0.293	0.293	strong	.	ZNF587	53	.	NM_032828	exon3	c.T947G	p.L316R	ATCAGCTTGTTCA	.	PASS	Atlas-SNP
ELP5	23587	hgsc.bcm.edu	37	17	7155861	7155861	+	Missense_Mutation	SNP	G	G	A	rs2521988	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	41	105	0	0.43617	0	G|0.906;A|0.094	0.094	strong	.	.	.	.	NM_203414	exon1	c.G40A	p.E14K	GGACGCGAGTTGG	.	PASS	Atlas-SNP
FOXA1	3169	hgsc.bcm.edu	37	14	38061742	38061742	+	Missense_Mutation	SNP	C	C	T	rs7144658	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	44	43	0	1	0	C|0.430;T|0.570	0.570	strong	.	FOXA1	56	.	NM_004496	exon2	c.G247A	p.A83T	TGCCGGCTACTGC	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31599556	31599556	+	Silent	SNP	A	A	C	rs78503551	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	33	43	0	0.6	0	A|0.995;C|0.005	0.005	strong	.	PRRC2A	152	.	NM_004638	exon16	c.A3106C	p.R1036R	AGAGGGAGGGGTT	.	PASS	Atlas-SNP
PTPRF	5792	hgsc.bcm.edu	37	1	44071221	44071221	+	Silent	SNP	G	G	A	rs631248	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	221	296	0	0.973568	0	A|0.648;C|0.002	0.648	strong	.	PTPRF	172	.	NM_002840	exon19	c.G3411A	p.V1137V	TGTGGTGCCCATT	.	PASS	Atlas-SNP
PDGFA	5154	hgsc.bcm.edu	37	7	552046	552046	+	Silent	SNP	A	A	G	rs1129401	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	67	92	0	0.432258	0	A|0.769;G|0.231	0.231	strong	.	PDGFA	34	.	NM_002607	exon3	c.T207C	p.H69H	AGTGGCATGGACC	.	PASS	Atlas-SNP
SDC2	6383	hgsc.bcm.edu	37	8	97605800	97605800	+	Silent	SNP	C	C	T	rs1126681	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	36	72	0	0.486486	0	C|0.804;T|0.196	0.196	strong	SDC2,NS,carcinoma,0,2	SDC2	33	2	NM_002998	exon2	c.C153T	p.Y51Y	TGACTACGCTTCT	.	PASS	Atlas-SNP
OTOL1	131149	hgsc.bcm.edu	37	3	161220819	161220819	+	Missense_Mutation	SNP	C	C	A	rs149127996	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	77	170	0	0.418478	0	C|0.995;A|0.005	0.005	strong	.	OTOL1	63	.	NM_001080440	exon4	c.C523A	p.P175T	GGTGAACCTGGCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	110	243	0	0.52381	0	C|0.794;N|0.000	.	strong	.	TOR1B	20	.	NM_014506	exon3	c.C552T	p.P184P	GCACCCCGGGATC	.	PASS	Atlas-SNP
THEM4	117145	hgsc.bcm.edu	37	1	151867528	151867528	+	Missense_Mutation	SNP	C	C	T	rs114800758	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	100	141	0	0.671141	0	C|0.994;T|0.006	0.006	strong	.	THEM4	19	.	NM_053055	exon2	c.G242A	p.R81H	GGTGTACGTTTAT	.	PASS	Atlas-SNP
ZNF579	163033	hgsc.bcm.edu	37	19	56090076	56090076	+	Silent	SNP	G	G	T	rs34164618	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	7	7	9	0	1	0	G|0.786;T|0.214	0.214	strong	.	ZNF579	21	.	NM_152600	exon2	c.C930A	p.A310A	GTAGGAGGCGAGG	.	PASS	Atlas-SNP
THSD1	55901	hgsc.bcm.edu	37	13	52952680	52952680	+	Silent	SNP	G	G	A	rs9536043	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	57	106	0	0.548077	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
PHLDB3	653583	hgsc.bcm.edu	37	19	43979589	43979589	+	Silent	SNP	G	G	T	rs1055099	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	40	108	0	0.470588	0	G|0.453;T|0.547	0.547	strong	.	PHLDB3	30	.	NM_198850	exon16	c.C1896A	p.T632T	AGCGGCGGTCACG	.	PASS	Atlas-SNP
IRF2BPL	64207	hgsc.bcm.edu	37	14	77492891	77492891	+	Silent	SNP	G	G	A	rs879027	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	86	103	0	1	0	G|0.586;A|0.414	0.414	strong	.	IRF2BPL	40	.	NM_024496	exon1	c.C1245T	p.Y415Y	CAATTCGTAGTCC	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86124861	86124861	+	Missense_Mutation	SNP	C	C	A	rs371702364		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	55	124	0	0.544554	0	.	.	weak	.	AKAP13	394	.	NM_007200	exon7	c.C3562A	p.L1188M	GTCCTACTGCAGC	.	PASS	Atlas-SNP
DNAJB3	414061	hgsc.bcm.edu	37	2	234652308	234652308	+	Missense_Mutation	SNP	G	G	T	rs34622615	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	77	130	0	0.484277	0	G|0.973;T|0.027	0.027	strong	.	.	.	.	NM_001001394	exon1	c.C255A	p.D85E	GAAGGGGTCCTCG	.	PASS	Atlas-SNP
USP24	23358	hgsc.bcm.edu	37	1	55538462	55538462	+	Silent	SNP	C	C	T	rs17410294	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	53	126	0	0.576087	0	C|0.916;T|0.084	0.084	strong	.	USP24	323	.	NM_015306	exon65	c.G7599A	p.K2533K	TACCTTCTTCTGT	.	PASS	Atlas-SNP
GIMAP7	168537	hgsc.bcm.edu	37	7	150217309	150217309	+	Missense_Mutation	SNP	C	C	T	rs3735080	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	42	95	0	0.477273	0	C|0.840;T|0.160	0.160	strong	GIMAP7,NS,carcinoma,0,1	GIMAP7	47	1	NM_153236	exon2	c.C247T	p.R83C	ATCAGCCGCTGCA	.	PASS	Atlas-SNP
THUMPD3	25917	hgsc.bcm.edu	37	3	9426224	9426224	+	Missense_Mutation	SNP	G	G	A	rs1129174	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	65	159	1	0.474453	0.00628931	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	.	scavenged	Atlas-SNP
HK1	3098	hgsc.bcm.edu	37	10	71060610	71060610	+	Missense_Mutation	SNP	A	A	G	rs906220	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	192	197	0	0.994819	0	A|0.099;G|0.901	0.901	strong	.	HK1	170	.	NM_033500	exon5	c.A20G	p.H7R	CCCTGCATGATTT	.	PASS	Atlas-SNP
ALG14	199857	hgsc.bcm.edu	37	1	95538424	95538424	+	Missense_Mutation	SNP	C	C	T	rs34364382	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	16	53	0	0.421053	0	C|0.994;T|0.006	0.006	strong	.	ALG14	13	.	NM_144988	exon1	c.G31A	p.A11T	CTCCTGCGGCCGC	.	PASS	Atlas-SNP
OR4M1	441670	hgsc.bcm.edu	37	14	20248828	20248828	+	Missense_Mutation	SNP	C	C	T	rs2635535	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	432	206	420	0	0.476852	0	C|0.736;T|0.264	0.264	strong	.	OR4M1	104	.	NM_001005500	exon1	c.C347T	p.T116I	TGCTCACAGTGAT	.	PASS	Atlas-SNP
TBX4	9496	hgsc.bcm.edu	37	17	59560463	59560463	+	Silent	SNP	C	C	T	rs7218485	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	46	87	0	0.484211	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
PABPC1L	80336	hgsc.bcm.edu	37	20	43566787	43566787	+	Silent	SNP	A	A	G	rs11780	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	62	140	0	0.516667	0	A|0.569;G|0.428	0.428	strong	.	PABPC1L	59	.	NM_001124756	exon13	c.A1731G	p.S577S	CAACTCAGAGCTG	.	PASS	Atlas-SNP
EHD2	30846	hgsc.bcm.edu	37	19	48244194	48244194	+	Silent	SNP	A	A	G	rs7255434	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	79	76	0	0.9875	0	A|0.481;G|0.519	0.519	strong	.	EHD2	59	.	NM_014601	exon6	c.A1137G	p.L379L	GCTGCTAGAGGCA	.	PASS	Atlas-SNP
SRGAP1	57522	hgsc.bcm.edu	37	12	64519806	64519806	+	Silent	SNP	T	T	C	rs789722	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	115	271	0	0.475207	0	T|0.405;C|0.595	0.595	strong	.	SRGAP1	146	.	NM_020762	exon19	c.T2274C	p.S758S	GCGGTCTGCCAGA	.	PASS	Atlas-SNP
DBN1	1627	hgsc.bcm.edu	37	5	176894756	176894756	+	Silent	SNP	C	C	T	rs2545794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	113	141	0	1	0	C|0.575;T|0.425	0.425	strong	.	DBN1	122	.	NM_080881	exon5	c.G324A	p.A108A	GAACTCCGCCACC	.	PASS	Atlas-SNP
PEF1	553115	hgsc.bcm.edu	37	1	32096265	32096265	+	Silent	SNP	A	A	G	rs1061770	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	45	102	0	0.616438	0	A|0.587;G|0.413	0.413	strong	.	PEF1	20	.	NM_012392	exon5	c.T804C	p.I268I	GAGCCGAATGTTG	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017552	1017552	+	Missense_Mutation	SNP	T	T	C	rs35868469	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1211	188	1192	1	0.155244	0.000838926	T|0.667;C|0.333	0.333	strong	.	MUC6	408	.	NM_005961	exon31	c.A5249G	p.H1750R	TGTGAATGTAGGG	.	PASS	Atlas-SNP
UBE4B	10277	hgsc.bcm.edu	37	1	10218472	10218472	+	Silent	SNP	T	T	C	rs114291761	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	60	129	0	0.550459	0	T|0.985;C|0.015	0.015	strong	.	UBE4B	233	.	NM_001105562	exon22	c.T2985C	p.H995H	CTATCATATTAGC	.	PASS	Atlas-SNP
PRKCZ	5590	hgsc.bcm.edu	37	1	1987993	1987993	+	Silent	SNP	T	T	C	rs12184	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	74	197	0	0.381443	0	T|0.462;C|0.538	0.538	strong	.	PRKCZ	84	.	NM_002744	exon3	c.T264C	p.D88D	CAGGGATGAAGGC	.	PASS	Atlas-SNP
ARAP3	64411	hgsc.bcm.edu	37	5	141051236	141051236	+	Silent	SNP	C	C	T	rs12514851	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	58	198	0	0.291457	0	C|0.849;T|0.151	0.151	strong	.	ARAP3	139	.	NM_022481	exon12	c.G1755A	p.A585A	AGGGGTCGCATCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	39	126	0	0.397959	0	C|0.851;T|0.149	0.149	strong	.	SCEL	85	.	NM_144777	exon32	c.C2022T	p.H674H	AATACACTGTGAA	.	PASS	Atlas-SNP
USP29	57663	hgsc.bcm.edu	37	19	57642098	57642098	+	Silent	SNP	G	G	A	rs3764574	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	88	139	0	0.564103	0	G|0.565;A|0.435	0.435	strong	.	USP29	186	.	NM_020903	exon4	c.G2055A	p.V685V	AGAGGTGCCTCAA	.	PASS	Atlas-SNP
NIN	51199	hgsc.bcm.edu	37	14	51221341	51221341	+	Silent	SNP	C	C	T	rs45578537	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	33	100	0	0.4125	0	C|0.989;T|0.011	0.011	strong	.	NIN	475	.	NM_020921	exon20	c.G4674A	p.T1558T	AGTTTCCGTTTTT	.	PASS	Atlas-SNP
ADPGK	83440	hgsc.bcm.edu	37	15	73052840	73052840	+	Missense_Mutation	SNP	T	T	C	rs8024644	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	42	75	0	0.477273	0	T|0.828;C|0.172	0.172	strong	.	ADPGK	19	.	NM_031284	exon4	c.A551G	p.K184R	TGTAGCTTTGGAC	.	PASS	Atlas-SNP
TGM3	7053	hgsc.bcm.edu	37	20	2290333	2290333	+	Missense_Mutation	SNP	C	C	A	rs214803	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	149	129	0	1	0	T|0.002;G|0.003	.	strong	TGM3,caecum,carcinoma,-1,4	TGM3	105	4	NM_003245	exon2	c.C38A	p.T13K	GGCAGACGGCCTT	.	PASS	Atlas-SNP
GIPC1	10755	hgsc.bcm.edu	37	19	14590236	14590236	+	Silent	SNP	C	C	T	rs3815715	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	21	91	0	0.538462	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
SEMA4F	10505	hgsc.bcm.edu	37	2	74883750	74883750	+	Missense_Mutation	SNP	G	G	A	rs139676653	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	72	176	0	0.470588	0	G|0.993;A|0.007	0.007	strong	.	SEMA4F	89	.	NM_001271662	exon2	c.G235A	p.V79I	CTTTATGTTGGCG	.	PASS	Atlas-SNP
ZCCHC3	85364	hgsc.bcm.edu	37	20	278806	278806	+	Silent	SNP	C	C	T	rs1057189	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	32	33	0	1	0	C|0.780;T|0.220	0.220	strong	.	ZCCHC3	20	.	NM_033089	exon1	c.C579T	p.S193S	GCGCTCCATCGGC	.	PASS	Atlas-SNP
DNAJB13	374407	hgsc.bcm.edu	37	11	73681135	73681135	+	Missense_Mutation	SNP	G	G	A	rs72982975	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	39	81	0	0.565217	0	G|0.759;A|0.241	0.241	strong	.	DNAJB13	28	.	NM_153614	exon8	c.G927A	p.M309I	GCAGATGCTGCGC	.	PASS	Atlas-SNP
ATG10	83734	hgsc.bcm.edu	37	5	81549216	81549216	+	Missense_Mutation	SNP	C	C	T	rs1864183	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	171	152	0	1	0	C|0.552;T|0.448	0.448	strong	.	ATG10	23	.	NM_001131028	exon8	c.C635T	p.T212M	AAGCAACGTCTCA	.	PASS	Atlas-SNP
SNX15	29907	hgsc.bcm.edu	37	11	64799998	64799998	+	Silent	SNP	T	T	C	rs534236	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	78	0	1	0	T|0.524;C|0.476	0.476	strong	.	SNX15	35	.	NM_147777	exon3	c.T231C	p.P77P	GTTCCCTGCTTTC	.	PASS	Atlas-SNP
CRTAC1	55118	hgsc.bcm.edu	37	10	99664456	99664456	+	Silent	SNP	T	T	C	rs7068503	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	42	107	0	0.506024	0	T|0.914;C|0.086	0.086	strong	.	CRTAC1	86	.	NM_001206528	exon7	c.A966G	p.Q322Q	GCTCATTTGCAGA	.	PASS	Atlas-SNP
RNPEP	6051	hgsc.bcm.edu	37	1	201969082	201969082	+	Silent	SNP	G	G	A	rs1130790	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	112	166	0	0.54902	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
PABPC4	8761	hgsc.bcm.edu	37	1	40030823	40030823	+	Silent	SNP	C	C	T	rs12127094	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	19	62	0	0.333333	0	C|0.940;T|0.060	0.060	strong	.	PABPC4	56	.	NM_001135653	exon8	c.G1200A	p.Q400Q	CTGGAACTGATTT	.	PASS	Atlas-SNP
PTCHD2	57540	hgsc.bcm.edu	37	1	11561593	11561593	+	Missense_Mutation	SNP	G	G	A	rs2817580	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	22	70	0	0.564103	0	G|0.586;A|0.414	0.414	strong	.	PTCHD2	193	.	NM_020780	exon2	c.G544A	p.G182S	CTCGGTGGCCCAG	.	PASS	Atlas-SNP
TRABD2A	129293	hgsc.bcm.edu	37	2	85059204	85059204	+	Missense_Mutation	SNP	C	C	T	rs201984217	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	66	113	0	0.455172	0	C|0.998;T|0.002	0.002	weak	.	.	.	.	NM_001080824	exon4	c.G910A	p.V304I	CAGGGGCGTGTTC	.	PASS	Atlas-SNP
FOXO3	2309	hgsc.bcm.edu	37	6	108882915	108882915	+	Silent	SNP	C	C	T	rs150320900	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	65	125	0	0.511811	0	C|0.995;T|0.005	0.005	strong	.	FOXO3	67	.	NM_001455	exon1	c.C504T	p.R168R	CACCCGCGCCATC	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60927412	60927412	+	Silent	SNP	G	G	A	rs624313	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	45	33	0	0.978261	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
NRD1	4898	hgsc.bcm.edu	37	1	52266242	52266242	+	Silent	SNP	G	G	A	rs8375	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	72	219	0	0.35468	0	T|0.088;G|0.434;C|0.096;A|0.382	0.382	strong	.	NRD1	89	.	NM_002525	exon23	c.C2631T	p.P877P	AGTCTCGGGCTTG	.	PASS	Atlas-SNP
ULK2	9706	hgsc.bcm.edu	37	17	19729495	19729495	+	Silent	SNP	T	T	C	rs157397	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244	243	262	0	0.995902	0	T|0.140;C|0.860	0.860	strong	.	ULK2	142	.	NM_001142610	exon11	c.A792G	p.A264A	AAAAAATGCTTCT	.	PASS	Atlas-SNP
IQCG	84223	hgsc.bcm.edu	37	3	197670652	197670652	+	Silent	SNP	G	G	A	rs3828371	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	62	127	0	0.548673	0	G|0.937;A|0.063	0.063	strong	.	IQCG	44	.	NM_032263	exon4	c.C279T	p.C93C	TACCACGCAGATG	.	PASS	Atlas-SNP
MAP7	9053	hgsc.bcm.edu	37	6	136687065	136687065	+	Missense_Mutation	SNP	C	C	T	rs35350783	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	105	177	0	0.636364	0	T|0.028;G|0.000;C|0.972	0.028	strong	.	MAP7	63	.	NM_001198609	exon10	c.G1171A	p.V391I	GCCGGACCTGAGC	.	PASS	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30892322	30892322	+	Silent	SNP	C	C	T	rs2532942	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	91	125	0	0.587097	0	C|0.739;T|0.261	0.261	strong	.	VARS2	60	.	NM_001167734	exon26	c.C2748T	p.P916P	CTACCCCAGCGCC	.	PASS	Atlas-SNP
FERMT1	55612	hgsc.bcm.edu	37	20	6069723	6069723	+	Silent	SNP	G	G	A	rs35413391	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	32	67	0	0.405063	0	G|0.949;A|0.051	0.051	strong	.	FERMT1	106	.	NM_017671	exon10	c.C1153T	p.L385L	TTGGTAGTAACTT	.	PASS	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	37	8	69046409	69046409	+	Silent	SNP	G	G	A	rs3793379	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	52	100	1	0.52	0.01	G|0.894;A|0.106	0.106	strong	PREX2,colon,carcinoma,+1,1	PREX2	614	1	NM_024870	exon32	c.G3882A	p.K1294K	CAGCAAGGAAAAT	.	scavenged	Atlas-SNP
GATA4	2626	hgsc.bcm.edu	37	8	11614575	11614575	+	Missense_Mutation	SNP	A	A	G	rs3729856	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	295	140	257	0	0.474576	0	A|0.912;G|0.088	0.088	strong	.	GATA4	29	.	NM_002052	exon6	c.A1129G	p.S377G	GGGCACAGCAGCT	.	PASS	Atlas-SNP
ELF1	1997	hgsc.bcm.edu	37	13	41515371	41515371	+	Silent	SNP	C	C	T	rs7987185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	95	110	1	0.979381	0.00909091	C|0.830;T|0.170	0.170	strong	.	ELF1	65	.	NM_172373	exon8	c.G942A	p.S314S	AGATAGCGATGGA	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536321	88536321	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	389	18	415	0	0.0462725	0	.	.	none	.	DSPP	174	.	NM_014208	exon5	c.G2507A	p.S836N	ATAGCAGCAACAG	.	PASS	Atlas-SNP
TNFRSF11A	8792	hgsc.bcm.edu	37	18	60021761	60021761	+	Missense_Mutation	SNP	C	C	T	rs35211496	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	10	5	20	0	0.5	0	C|0.883;T|0.117	0.117	strong	TNFRSF11A,NS,carcinoma,0,1	TNFRSF11A	51	1	NM_001270951	exon4	c.C421T	p.H141Y	GCCCAGCACCCGT	.	PASS	Atlas-SNP
TCP10L2	401285	hgsc.bcm.edu	37	6	167592606	167592606	+	Silent	SNP	T	T	A	rs201866116	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	22	95	0	0.203704	0	T|0.927;A|0.073	0.073	strong	.	TCP10L2	41	.	NM_001145121	exon6	c.T765A	p.V255V	CGGAGTTGCTGGT	.	PASS	Atlas-SNP
TEX26	122046	hgsc.bcm.edu	37	13	31543095	31543095	+	Silent	SNP	C	C	T	rs2274869	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	82	152	0	0.58156	0	C|0.784;T|0.216	0.216	strong	.	.	.	.	NM_152325	exon6	c.C720T	p.Y240Y	TGACTACGACAAA	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	116967405	116967405	+	Silent	SNP	G	G	T	rs13290696	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	18	49	0	0.4	0	G|0.932;T|0.068	0.068	strong	.	COL27A1	200	.	NM_032888	exon8	c.G2148T	p.P716P	TGGACCGGCAGGG	.	PASS	Atlas-SNP
ZNF606	80095	hgsc.bcm.edu	37	19	58490929	58490929	+	Silent	SNP	T	T	C	rs75971696	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	45	91	0	0.576923	0	T|0.934;C|0.066	0.066	strong	.	ZNF606	155	.	NM_025027	exon7	c.A1119G	p.K373K	ATTGTATTTATAC	.	PASS	Atlas-SNP
ITGA11	22801	hgsc.bcm.edu	37	15	68624290	68624290	+	Silent	SNP	G	G	A	rs2292745	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	109	203	0	0.564767	0	G|0.757;A|0.242	0.242	strong	.	ITGA11	110	.	NM_001004439	exon14	c.C1677T	p.D559D	CACCACGTCATTG	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50555686	50555686	+	Missense_Mutation	SNP	A	A	C	rs760749	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	46	143	0	0.383333	0	A|0.868;C|0.132	0.132	strong	.	MOV10L1	238	.	NM_018995	exon9	c.A1360C	p.I454L	TCACTAATTGCTG	.	PASS	Atlas-SNP
C20orf166	128826	hgsc.bcm.edu	37	20	61167883	61167883	+	Silent	SNP	G	G	A	rs6143064	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	39	65	0	0.549296	0	G|0.722;A|0.278	0.278	strong	.	C20orf166	17	.	NM_178463	exon4	c.G353A	p.X118X	ACTGCTGAAGGGA	.	PASS	Atlas-SNP
SNCAIP	9627	hgsc.bcm.edu	37	5	121780312	121780312	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	55	125	0	0.478261	0	.	.	none	.	SNCAIP	308	.	NM_005460	exon8	c.C1477A	p.P493T	GAAAAGCCCTCCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	116	201	0	0.479339	0	G|0.758;A|0.242	0.242	strong	.	NAGPA	30	.	NM_016256	exon10	c.C1394T	p.T465I	GCTGCAGTGCTGA	.	PASS	Atlas-SNP
NIPA2	81614	hgsc.bcm.edu	37	15	23021238	23021238	+	Silent	SNP	C	C	T	rs7170838	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	76	124	0	0.567164	0	C|0.792;T|0.208	0.208	strong	NIPA2,NS,adenoma,0,1	NIPA2	49	1	NM_001184889	exon6	c.G99A	p.K33K	GAGGCCCTTTTTT	.	PASS	Atlas-SNP
C17orf77	146723	hgsc.bcm.edu	37	17	72588438	72588438	+	Nonsense_Mutation	SNP	G	G	T	rs79556281	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	38	46	0	0.612903	0	G|0.994;T|0.006	0.006	strong	.	C17orf77	31	.	NM_152460	exon3	c.G253T	p.E85X	CTACTCGAATCTC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	63	64	0	0.984375	0	C|0.598;T|0.402	0.402	strong	.	WDFY4	205	.	NM_020945	exon60	c.C9353T	p.P3118L	AGCCCCCGGCTCA	.	PASS	Atlas-SNP
MATN2	4147	hgsc.bcm.edu	37	8	98943446	98943446	+	Silent	SNP	T	T	C	rs2290470	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	35	76	0	0.514706	0	C|0.399;T|0.601	0.399	strong	.	MATN2	165	.	NM_002380	exon3	c.T408C	p.T136T	CATGACTGGGCTG	.	PASS	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	37	4	175898994	175898994	+	Missense_Mutation	SNP	T	T	C	rs113485638	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	39	166	0	0.184834	0	T|0.500;C|0.500	0.500	weak	.	ADAM29	262	.	NM_001130703	exon4	c.T2318C	p.M773T	GGGTGATGCCTTC	.	PASS	Atlas-SNP
SAR1B	51128	hgsc.bcm.edu	37	5	133956668	133956668	+	Silent	SNP	G	G	A	rs11558540	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	129	212	0	0.602804	0	G|0.886;A|0.114	0.114	strong	.	SAR1B	19	.	NM_001033503	exon4	c.C133T	p.L45L	CTTTTAGCATGTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	22	52	0	0.55	0	T|0.779;C|0.221	0.221	strong	.	AMDHD1	56	.	NM_152435	exon2	c.T237C	p.I79I	ATGTATTCTACCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505858	195505858	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	10	238	3	0.046729	0.012605	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-1,3	MUC4	1505	3	NM_018406	exon2	c.C12593T	p.T4198I	GAGGAAGTGTCGG	.	scavenged	Atlas-SNP
CTNNA3	29119	hgsc.bcm.edu	37	10	68040325	68040325	+	Missense_Mutation	SNP	C	C	T	rs4548513	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	35	82	0	0.426829	0	C|0.526;N|0.000	.	strong	.	CTNNA3	401	.	NM_013266	exon13	c.G1787A	p.S596N	AATGAGCTTTTGC	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40392347	40392347	+	Missense_Mutation	SNP	C	C	G	rs2542318	bycluster;byfrequency;by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	369	34	211	2	0.0921409	0.00947867	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
PUS10	150962	hgsc.bcm.edu	37	2	61175312	61175312	+	Silent	SNP	T	T	C	rs12479056	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	102	78	0	1	0	T|0.412;C|0.588	0.588	strong	.	PUS10	49	.	NM_144709	exon16	c.A1317G	p.K439K	GTCGATTTTTAAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	18	18	24	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
C4orf17	84103	hgsc.bcm.edu	37	4	100443784	100443784	+	Silent	SNP	C	C	G	rs61732380	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	111	109	0	0.991071	0	C|0.769;G|0.231	0.231	strong	.	C4orf17	42	.	NM_032149	exon3	c.C255G	p.S85S	CCCCTCCAGCACT	.	PASS	Atlas-SNP
SLC7A8	23428	hgsc.bcm.edu	37	14	23652004	23652004	+	Silent	SNP	G	G	A	rs1884545	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	34	85	0	0.43038	0	G|0.934;A|0.066	0.066	strong	.	SLC7A8	54	.	NM_012244	exon1	c.C120T	p.I40I	CAATCCGATCTCT	.	PASS	Atlas-SNP
BIRC7	79444	hgsc.bcm.edu	37	20	61869826	61869826	+	Silent	SNP	C	C	T	rs2273487	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	21	65	0	0.411765	0	C|0.554;T|0.446	0.446	strong	.	BIRC7	25	.	NM_139317	exon3	c.C528T	p.S176S	GGGCTCCTGGGTG	.	PASS	Atlas-SNP
RIN1	9610	hgsc.bcm.edu	37	11	66099987	66099987	+	Silent	SNP	C	C	T	rs1784029	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	102	138	0	1	0	C|0.445;T|0.555	0.555	strong	.	RIN1	64	.	NM_004292	exon10	c.G2112A	p.A704A	CCACTCCGCCCGG	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40406029	40406029	+	Missense_Mutation	SNP	C	C	T	rs61735676	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	883	407	546	0	0.460929	0	C|0.948;T|0.052	0.052	strong	.	FCGBP	416	.	NM_003890	exon10	c.G4817A	p.R1606Q	TGCTGCCGACAGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	41	75	0	0.577465	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
TNC	3371	hgsc.bcm.edu	37	9	117835899	117835899	+	Missense_Mutation	SNP	C	C	T	rs1138545	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	83	140	0	0.546053	0	C|0.864;T|0.136	0.136	strong	.	TNC	282	.	NM_002160	exon10	c.G3197A	p.R1066H	TTCACACGTGCGG	.	PASS	Atlas-SNP
FERMT1	55612	hgsc.bcm.edu	37	20	6064710	6064710	+	Silent	SNP	A	A	G	rs753927	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	21	63	0	0.381818	0	A|0.615;G|0.385	0.385	strong	.	FERMT1	106	.	NM_017671	exon13	c.T1695C	p.F565F	GAGGCCAAACTCA	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3253768	3253768	+	Silent	SNP	C	C	T	rs3802303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	57	152	0	0.463415	0	C|0.663;T|0.337	0.337	strong	CSMD1_ENST00000537824,colon,carcinoma,0,2	CSMD1	1469	2	NM_033225	exon17	c.G2541A	p.L847L	GGTGAACAGCAGG	.	PASS	Atlas-SNP
SLC6A12	6539	hgsc.bcm.edu	37	12	319125	319125	+	Missense_Mutation	SNP	A	A	G	rs557881	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	125	167	0	0.976562	0	A|0.466;G|0.534	0.534	strong	.	SLC6A12	60	.	NM_001122848	exon3	c.T28C	p.C10R	GCCCACACTCTTG	.	PASS	Atlas-SNP
CDH7	1005	hgsc.bcm.edu	37	18	63511176	63511176	+	Silent	SNP	T	T	C	rs2306675	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	153	197	0	0.993506	0	T|0.756;C|0.244	0.244	strong	CDH7,NS,carcinoma,0,1	CDH7	362	1	NM_004361	exon7	c.T1110C	p.D370D	GGAAGATGTAGAT	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204644	56204644	+	Silent	SNP	T	T	G	rs12963422	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	47	94	0	0.602564	0	G|0.303;N|0.000	0.303	strong	.	ALPK2	487	.	NM_052947	exon5	c.A2775C	p.V925V	AGCATGTACTGTG	.	PASS	Atlas-SNP
TGIF1	7050	hgsc.bcm.edu	37	18	3457607	3457607	+	Missense_Mutation	SNP	C	C	T	rs2229333	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	91	216	0	0.56875	0	C|0.942;G|0.000;T|0.057	0.057	strong	.	TGIF1	41	.	NM_170695	exon3	c.C875T	p.P292L	CATCCCCGGGATC	.	PASS	Atlas-SNP
DTX3L	151636	hgsc.bcm.edu	37	3	122288210	122288210	+	Missense_Mutation	SNP	G	G	A	rs2332285	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	157	185	0	1	0	G|0.449;A|0.551	0.551	strong	.	DTX3L	59	.	NM_138287	exon3	c.G1274A	p.R425K	AGGACAGGCAGGT	.	PASS	Atlas-SNP
ADAM28	10863	hgsc.bcm.edu	37	8	24167700	24167700	+	Silent	SNP	G	G	A	rs150620720	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	37	72	0	0.397849	0	G|1.000;A|0.000	0.000	strong	ADAM28,NS,carcinoma,0,1	ADAM28	100	1	NM_014265	exon4	c.G252A	p.T84T	CTACACGGAAACA	.	PASS	Atlas-SNP
OR1A2	26189	hgsc.bcm.edu	37	17	3100827	3100827	+	Silent	SNP	T	T	C	rs2241093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	53	104	1	0.524752	0.00961538	T|0.693;C|0.307	0.307	strong	OR1A2,NS,carcinoma,0,1	OR1A2	52	1	NM_012352	exon1	c.T15C	p.N5N	AGAAAATCAATCC	.	scavenged	Atlas-SNP
LRP5	4041	hgsc.bcm.edu	37	11	68192690	68192690	+	Silent	SNP	G	G	A	rs556442	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	94	92	0	1	0	G|0.460;A|0.540	0.540	strong	.	LRP5	136	.	NM_002335	exon15	c.G3357A	p.V1119V	GGTGGTGGACAAC	.	PASS	Atlas-SNP
SLC25A41	284427	hgsc.bcm.edu	37	19	6427408	6427408	+	Silent	SNP	G	G	A	rs3760750	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	111	106	0	0.991071	0	G|0.908;A|0.092	0.092	strong	.	SLC25A41	26	.	NM_173637	exon5	c.C729T	p.R243R	GTAGCCGCGGTAA	.	PASS	Atlas-SNP
TOMM34	10953	hgsc.bcm.edu	37	20	43572217	43572217	+	Silent	SNP	T	T	C	rs1804644	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	44	99	0	0.52381	0	T|0.833;C|0.167	0.167	strong	.	TOMM34	16	.	NM_006809	exon6	c.A702G	p.A234A	GCAGAGTGCTCTG	.	PASS	Atlas-SNP
CPQ	10404	hgsc.bcm.edu	37	8	97847358	97847358	+	Silent	SNP	G	G	T	rs1864384	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	214	224	0	0.990741	0	G|0.413;T|0.587	0.587	strong	.	.	.	.	NM_016134	exon3	c.G591T	p.V197V	CAAGGTGGGGGCT	.	PASS	Atlas-SNP
DOM3Z	1797	hgsc.bcm.edu	37	6	31938412	31938412	+	Missense_Mutation	SNP	G	G	T	rs17207867	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	64	95	0	0.627451	0	A|0.000;C|0.000;G|0.895;T|0.105	0.105	strong	.	DOM3Z	20	.	NM_005510	exon4	c.C783A	p.H261Q	AGGGCTGTGCATC	.	PASS	Atlas-SNP
HIGD1C	613227	hgsc.bcm.edu	37	12	51354803	51354803	+	Silent	SNP	C	C	T	rs12306808	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235	128	165	0	0.544681	0	C|0.758;T|0.242	0.242	strong	.	HIGD1C	4	.	NM_001109619	exon2	c.C147T	p.Y49Y	AAAGTACAGAAGA	.	PASS	Atlas-SNP
OR8U1	219417	hgsc.bcm.edu	37	11	56143715	56143715	+	Missense_Mutation	SNP	A	A	G	rs78460947	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	666	298	613	0	0.447447	0	A|0.986;G|0.014	0.014	strong	.	OR8U1	59	.	NM_001005204	exon1	c.A616G	p.M206V	GGTATCATGTTCA	.	PASS	Atlas-SNP
OR13C2	392376	hgsc.bcm.edu	37	9	107367841	107367841	+	Missense_Mutation	SNP	A	A	T	rs61745782	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	526	212	523	0	0.403042	0	A|0.026;T|0.974	0.974	strong	OR13C2,NS,carcinoma,-1,1	OR13C2	46	1	NM_001004481	exon1	c.T68A	p.L23H	AACTCAAGTCTTG	.	PASS	Atlas-SNP
TNFSF12	8742	hgsc.bcm.edu	37	17	7460517	7460517	+	Silent	SNP	G	G	C	rs3803798	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	32	73	0	0.5	0	G|0.494;C|0.506	0.506	strong	TNFSF12,colon,carcinoma,0,1	TNFSF12	20	1	NM_003809	exon7	c.G600C	p.A200A	TGCGGCGAGTTCC	.	PASS	Atlas-SNP
MPPED1	758	hgsc.bcm.edu	37	22	43831056	43831056	+	Silent	SNP	C	C	T	rs4331615	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	62	72	0	1	0	C|0.606;T|0.394	0.394	strong	.	MPPED1	59	.	NM_001044370	exon3	c.C327T	p.Y109Y	GCCGTACGGCGAC	.	PASS	Atlas-SNP
SGIP1	84251	hgsc.bcm.edu	37	1	67109335	67109335	+	Missense_Mutation	SNP	A	A	G	rs7526812	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	74	103	0	0.61157	0	A|0.749;G|0.251	0.251	strong	SGIP1,NS,carcinoma,0,1	SGIP1	272	1	NM_032291	exon7	c.A392G	p.K131R	TTCTTAAGAATGC	.	PASS	Atlas-SNP
KNTC1	9735	hgsc.bcm.edu	37	12	123057792	123057792	+	Missense_Mutation	SNP	A	A	G	rs61751322	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	49	112	0	0.471154	0	A|0.962;G|0.038	0.038	strong	.	KNTC1	182	.	NM_014708	exon26	c.A2243G	p.H748R	GAGAACATGACTT	.	PASS	Atlas-SNP
BSPRY	54836	hgsc.bcm.edu	37	9	116132334	116132334	+	Missense_Mutation	SNP	C	C	T	rs3088235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	44	65	0	0.60274	0	C|0.852;T|0.148	0.148	strong	.	BSPRY	21	.	NM_017688	exon6	c.C1121T	p.T374I	CCGGCACAGTGCT	.	PASS	Atlas-SNP
DEPTOR	64798	hgsc.bcm.edu	37	8	120977542	120977542	+	Missense_Mutation	SNP	A	A	G	rs34068787	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	34	70	0	0.459459	0	A|0.993;G|0.007	0.007	strong	.	DEPTOR	41	.	NM_022783	exon4	c.A496G	p.M166V	ACCTTCATGGCAT	.	PASS	Atlas-SNP
PTPRN	5798	hgsc.bcm.edu	37	2	220162129	220162129	+	Silent	SNP	C	C	T	rs144452294	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	41	91	0	0.476744	0	C|0.996;T|0.004	0.004	strong	PTPRN,colon,carcinoma,-1,1	PTPRN	138	1	NM_002846	exon14	c.G1914A	p.T638T	GGACTTCGTGGCC	.	PASS	Atlas-SNP
TBC1D17	79735	hgsc.bcm.edu	37	19	50387729	50387729	+	Silent	SNP	C	C	T	rs35681527	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	83	184	0	0.474286	0	C|0.873;G|0.000;T|0.127	0.127	strong	.	TBC1D17	39	.	NM_024682	exon12	c.C1257T	p.G419G	CCAGGGCATGAGT	.	PASS	Atlas-SNP
TIAM2	26230	hgsc.bcm.edu	37	6	155575607	155575607	+	Silent	SNP	G	G	A	rs3011895	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	90	222	0	0.471204	0	G|0.666;A|0.334	0.334	strong	.	TIAM2	161	.	NM_012454	exon25	c.G4368A	p.E1456E	GAGGGAGAACTTC	.	PASS	Atlas-SNP
SLC41A1	254428	hgsc.bcm.edu	37	1	205779231	205779231	+	Silent	SNP	G	G	A	rs11240569	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	66	144	0	0.4125	0	G|0.761;A|0.239	0.239	strong	SLC41A1,NS,carcinoma,0,1	SLC41A1	46	1	NM_173854	exon2	c.C339T	p.T113T	AGCCACGGTCCCA	.	PASS	Atlas-SNP
C4orf27	54969	hgsc.bcm.edu	37	4	170678993	170678993	+	Silent	SNP	T	T	C	rs11540095	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	7	7	41	0	1	0	T|0.200;C|0.800	0.800	strong	.	C4orf27	32	.	NM_017867	exon1	c.A36G	p.G12G	CCCCTCTCCGCCG	.	PASS	Atlas-SNP
TRAFD1	10906	hgsc.bcm.edu	37	12	112580071	112580071	+	Silent	SNP	C	C	T	rs7970397	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	57	129	0	0.435115	0	C|0.830;T|0.170	0.170	strong	.	TRAFD1	42	.	NM_001143906	exon6	c.C822T	p.G274G	TCATGGCGGTCCC	.	PASS	Atlas-SNP
TMEM201	199953	hgsc.bcm.edu	37	1	9670834	9670834	+	Missense_Mutation	SNP	C	C	T	rs4926472	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	67	145	0	0.603604	0	C|0.322;T|0.678	0.678	strong	.	TMEM201	63	.	NM_001130924	exon9	c.C1736T	p.P579L	GGAAGCCGCCCCT	.	PASS	Atlas-SNP
ZCCHC14	23174	hgsc.bcm.edu	37	16	87493737	87493737	+	Missense_Mutation	SNP	T	T	C	rs11648852	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	70	151	0	0.482759	0	T|0.873;C|0.127	0.127	strong	.	ZCCHC14	87	.	NM_015144	exon2	c.A160G	p.I54V	GAGTGATCTGAGG	.	PASS	Atlas-SNP
RPP38	10557	hgsc.bcm.edu	37	10	15145948	15145948	+	Missense_Mutation	SNP	T	T	C	rs10242	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	44	80	0	0.517647	0	T|0.978;C|0.022	0.022	strong	.	RPP38	26	.	NM_001265601	exon2	c.T635C	p.I212T	ACAGAATTGAAGA	.	PASS	Atlas-SNP
ANO1	55107	hgsc.bcm.edu	37	11	70007392	70007392	+	Silent	SNP	A	A	G	rs2276067	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	74	200	0	0.45679	0	A|0.347;G|0.653	0.653	strong	.	ANO1	156	.	NM_018043	exon17	c.A1704G	p.A568A	CACCGCAGTCATC	.	PASS	Atlas-SNP
MAMDC2	256691	hgsc.bcm.edu	37	9	72741247	72741247	+	Silent	SNP	C	C	T	rs2296772	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	46	127	0	0.40708	0	C|0.923;T|0.077	0.077	strong	.	MAMDC2	55	.	NM_153267	exon6	c.C816T	p.Y272Y	CCTTTACGAGGAA	.	PASS	Atlas-SNP
OR13G1	441933	hgsc.bcm.edu	37	1	247836008	247836008	+	Silent	SNP	G	G	A	rs28555391	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	95	172	0	0.494792	0	G|0.664;A|0.336	0.336	strong	.	OR13G1	78	.	NM_001005487	exon1	c.C336T	p.F112F	GGTGGTGAAGAGA	.	PASS	Atlas-SNP
ZNF485	220992	hgsc.bcm.edu	37	10	44111806	44111806	+	Silent	SNP	G	G	A	rs10899839	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	68	130	0	0.515152	0	G|0.681;A|0.319	0.319	strong	.	ZNF485	102	.	NM_145312	exon5	c.G315A	p.L105L	TGTTCTGGGAGAG	.	PASS	Atlas-SNP
OR51A7	119687	hgsc.bcm.edu	37	11	4928866	4928866	+	Silent	SNP	C	C	T	rs7941509	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	69	182	0	0.463087	0	C|0.549;T|0.451	0.451	strong	OR51A7,rectum,carcinoma,0,1	OR51A7	86	1	NM_001004749	exon1	c.C267T	p.A89A	CAATGCCATGGGA	.	PASS	Atlas-SNP
KIAA0922	23240	hgsc.bcm.edu	37	4	154513627	154513627	+	Missense_Mutation	SNP	A	A	G	rs7669418	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	45	95	0	0.401786	0	A|0.743;G|0.257	0.257	strong	KIAA0922,NS,carcinoma,0,1	KIAA0922	214	1	NM_001131007	exon18	c.A1813G	p.I605V	ACCTAGATCAAGT	.	PASS	Atlas-SNP
TMEM119	338773	hgsc.bcm.edu	37	12	108985945	108985945	+	Missense_Mutation	SNP	A	A	G	rs7975237	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	79	202	0	0.481707	0	A|0.417;G|0.583	0.583	strong	.	TMEM119	31	.	NM_181724	exon2	c.T215C	p.I72T	AGGGTTATGGGCT	.	PASS	Atlas-SNP
SMARCC2	6601	hgsc.bcm.edu	37	12	56563346	56563346	+	Silent	SNP	G	G	A	rs17852368	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	32	114	0	0.326531	0	G|0.961;A|0.039	0.039	strong	.	SMARCC2	212	.	NM_139067	exon25	c.C2682T	p.A894A	GGCGGCGGCAGCA	.	PASS	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	37	18	13056682	13056682	+	Missense_Mutation	SNP	G	G	A	rs2282542	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	32	81	0	0.380952	0	G|0.844;A|0.156	0.156	strong	.	CEP192	340	.	NM_032142	exon19	c.G4093A	p.V1365M	TCAGGAGTGACAT	.	PASS	Atlas-SNP
ANKDD1A	348094	hgsc.bcm.edu	37	15	65235776	65235776	+	Missense_Mutation	SNP	A	A	G	rs34988193	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	58	131	0	0.411348	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
FBXL18	80028	hgsc.bcm.edu	37	7	5541009	5541009	+	Silent	SNP	C	C	A	rs12667381	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	48	80	0	0.585366	0	C|0.861;A|0.139	0.139	strong	.	FBXL18	99	.	NM_024963	exon3	c.G891T	p.L297L	CTTGGGCAGCTGC	.	PASS	Atlas-SNP
F13B	2165	hgsc.bcm.edu	37	1	197030201	197030201	+	Silent	SNP	T	T	C	rs5997	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	38	55	0	0.493506	0	T|0.221;C|0.779	0.779	strong	.	F13B	137	.	NM_001994	exon4	c.A456G	p.T152T	CAAACATGTTTCT	.	PASS	Atlas-SNP
APOPT1	84334	hgsc.bcm.edu	37	14	104029449	104029449	+	Silent	SNP	G	G	A	rs2274267	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	13	5	5	0	0.384615	0	G|0.747;A|0.253	0.253	strong	.	.	.	.	NM_032374	exon1	c.G150A	p.T50T	GGATACGGCGCCC	.	PASS	Atlas-SNP
HIST1H2BL	8340	hgsc.bcm.edu	37	6	27775674	27775674	+	Missense_Mutation	SNP	A	A	G	rs200484	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	127	216	0	0.472119	0	A|0.876;G|0.124	0.124	strong	.	HIST1H2BL	48	.	NM_003519	exon1	c.T11C	p.L4P	TTGGCCAGCTCGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513173	195513173	+	Missense_Mutation	SNP	G	G	A	rs77448757	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	620	96	484	2	0.154839	0.00413223	G|0.967;A|0.033	0.033	strong	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C5278T	p.P1760S	GAAGAGGGGTGGC	.	scavenged	Atlas-SNP
LDLRAD1	388633	hgsc.bcm.edu	37	1	54480033	54480033	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	34	90	0	0.557377	0	.	.	none	.	LDLRAD1	22	.	NM_001010978	exon3	c.C78T	p.G26G	GCCGCCGCCTGCT	.	PASS	Atlas-SNP
BNIP3	664	hgsc.bcm.edu	37	10	133786586	133786586	+	Silent	SNP	T	T	C	rs56629693		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	74	154	0	0.48366	0	.	.	weak	.	BNIP3	13	.	NM_004052	exon3	c.A234G	p.R78R	AGAAGCTCTGTTG	.	PASS	Atlas-SNP
CYP11B1	1584	hgsc.bcm.edu	37	8	143957738	143957738	+	Silent	SNP	C	C	T	rs34570566	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	112	259	0	0.451613	0	C|0.910;T|0.090	0.090	strong	CYP11B1,NS,carcinoma,-1,1	CYP11B1	128	1	NM_000497	exon5	c.G873A	p.A291A	GAGCTCCGCCACG	.	PASS	Atlas-SNP
GPR144	347088	hgsc.bcm.edu	37	9	127215772	127215772	+	Missense_Mutation	SNP	C	C	G	rs72616654	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	14	21	0	0.518519	0	C|0.491;G|0.509	0.509	strong	.	GPR144	33	.	NM_001161808	exon4	c.C796G	p.H266D	GTGCGTCACGCCC	.	PASS	Atlas-SNP
SEMA3C	10512	hgsc.bcm.edu	37	7	80427495	80427495	+	Silent	SNP	C	C	A	rs1880959	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	67	185	1	0.468531	0.00540541	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	.	scavenged	Atlas-SNP
LAMA4	3910	hgsc.bcm.edu	37	6	112435912	112435912	+	Silent	SNP	A	A	T	rs1050353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	100	134	0	1	0	A|0.701;T|0.299	0.299	strong	.	LAMA4	227	.	NM_001105206	exon37	c.T5160A	p.V1720V	GGGTGTAACTGAG	.	PASS	Atlas-SNP
HLA-DPB1	3115	hgsc.bcm.edu	37	6	33052981	33052981	+	Missense_Mutation	SNP	C	C	A	rs14362	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	313	167	184	0	0.533546	0	C|0.874;A|0.126	0.126	strong	.	HLA-DPB1	28	.	NM_002121	exon3	c.C619A	p.L207M	ACCAGCCTGGATA	.	PASS	Atlas-SNP
MLXIPL	51085	hgsc.bcm.edu	37	7	73010754	73010754	+	Silent	SNP	C	C	T	rs61738649	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	84	77	0	1	0	C|0.957;T|0.043	0.043	strong	.	MLXIPL	54	.	NM_032954	exon12	c.G1878A	p.L626L	GACGCTCAGAGTC	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536919	88536919	+	Silent	SNP	T	T	C	rs369387818	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	285	61	312	3	0.214035	0.00961538	.	.	weak	DSPP,NS,carcinoma,0,3	DSPP	174	3	NM_014208	exon5	c.T3105C	p.D1035D	CAGCGATAGCAGT	.	scavenged	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5436263	5436263	+	Missense_Mutation	SNP	C	C	T	rs2301582	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	113	103	1	1	0.00970874	C|0.738;T|0.262	0.262	strong	.	NLRP1	358	.	NM_001033053	exon11	c.G3187A	p.V1063M	AAGGCACGCACAA	.	PASS	Atlas-SNP
LZTS3	0	hgsc.bcm.edu	37	20	3147468	3147468	+	Silent	SNP	G	G	A	rs17853865	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	43	85	0	0.5	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
ANKRD36	375248	hgsc.bcm.edu	37	2	97883087	97883087	+	Silent	SNP	A	A	G	rs62156175	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	887	280	786	2	0.315671	0.00254453	A|0.850;G|0.149	0.149	strong	ANKRD36_ENST00000420699,NS,carcinoma,0,2	ANKRD36	170	2	NM_001164315	exon64	c.A3831G	p.T1277T	AATAACAGGCGGT	.	scavenged	Atlas-SNP
C21orf62	56245	hgsc.bcm.edu	37	21	34166343	34166343	+	Silent	SNP	C	C	T	rs2231390	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	50	94	0	0.490196	0	C|0.240;T|0.760	0.760	strong	.	C21orf62	26	.	NM_001162495	exon4	c.G390A	p.E130E	CTTGGCCTCCATG	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10469292	10469292	+	Silent	SNP	C	C	T	rs62490857	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	65	141	0	0.528455	0	C|0.945;T|0.055	0.055	strong	.	RP1L1	453	.	NM_178857	exon4	c.G2316A	p.S772S	GGCCGGCGAGCAT	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103394716	103394716	+	Silent	SNP	T	T	C	rs9585987	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	31	62	0	0.607843	0	T|0.305;C|0.695	0.695	strong	.	.	.	.	NM_001146197	exon4	c.A8331G	p.T2777T	AATAGATGTGTAG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9072975	9072975	+	Missense_Mutation	SNP	G	G	A	rs17000816	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	470	264	432	0	0.561702	0	G|0.810;A|0.190	0.190	strong	MUC16_ENST00000397910,rectum,carcinoma,0,3	MUC16	4315	3	NM_024690	exon3	c.C14471T	p.T4824M	GGATGCGTTGTCT	.	PASS	Atlas-SNP
ZCCHC14	23174	hgsc.bcm.edu	37	16	87445839	87445839	+	Missense_Mutation	SNP	C	C	T	rs3748400	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	47	127	0	0.451923	0	C|0.484;T|0.516	0.516	strong	.	ZCCHC14	87	.	NM_015144	exon12	c.G2077A	p.V693M	GGCCCACTGGCAT	.	PASS	Atlas-SNP
CYP17A1	1586	hgsc.bcm.edu	37	10	104596924	104596924	+	Silent	SNP	C	C	A	rs6163	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	67	136	0	0.51938	0	C|0.605;A|0.390	0.390	strong	CYP17A1,NS,carcinoma,-1,1	CYP17A1	48	1	NM_000102	exon1	c.G195T	p.S65S	ACGAACCGAATAG	.	PASS	Atlas-SNP
OR2H1	26716	hgsc.bcm.edu	37	6	29430170	29430170	+	Silent	SNP	T	T	C	rs2073148	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	141	238	0	0.530075	0	T|0.864;C|0.136	0.136	strong	.	OR2H1	38	.	NM_030883	exon3	c.T624C	p.P208P	TGTGCCTCTCAGC	.	PASS	Atlas-SNP
TDRKH	11022	hgsc.bcm.edu	37	1	151747970	151747970	+	Silent	SNP	A	A	G	rs11204885	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224	134	177	0	0.598214	0	A|0.773;G|0.227	0.227	strong	.	TDRKH	45	.	NM_001083965	exon10	c.T1332C	p.H444H	AGCACAATGAGTG	.	PASS	Atlas-SNP
FTSJD1	55783	hgsc.bcm.edu	37	16	71318001	71318001	+	Missense_Mutation	SNP	G	G	T	rs3096381	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	48	95	0	0.475248	0	G|0.883;T|0.117	0.117	strong	.	FTSJD1	70	.	NM_018348	exon3	c.C1823A	p.T608K	AAAGTTGTGAGTT	.	PASS	Atlas-SNP
PRR5-ARHGAP8	553158	hgsc.bcm.edu	37	22	45258324	45258324	+	Missense_Mutation	SNP	C	C	T	rs2071762	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	68	88	0	0.618182	0	C|0.825;T|0.175	0.175	strong	.	PRR5-ARHGAP8	53	.	NM_181334	exon15	c.C1517T	p.P506L	GCACCCCGGAGGC	.	PASS	Atlas-SNP
TRIM16L	147166	hgsc.bcm.edu	37	17	18630995	18630995	+	Missense_Mutation	SNP	G	G	A	rs8075739	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	106	206	0	0.479638	0	G|0.608;A|0.392	0.392	strong	.	TRIM16L	15	.	NM_001037330	exon2	c.G125A	p.R42K	AGTACAGGAGTGC	.	PASS	Atlas-SNP
SCAND3	114821	hgsc.bcm.edu	37	6	28543264	28543264	+	Silent	SNP	C	C	T	rs17336532	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	45	65	0	0.625	0	C|0.820;T|0.180	0.180	strong	.	SCAND3	156	.	NM_052923	exon3	c.G1218A	p.L406L	TGACCGCAAAAAA	.	PASS	Atlas-SNP
MRPL37	51253	hgsc.bcm.edu	37	1	54683856	54683856	+	Silent	SNP	C	C	G	rs15921	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	157	188	0	0.993671	0	C|0.704;G|0.296	0.296	strong	MRPL37,NS,carcinoma,0,2	MRPL37	36	2	NM_016491	exon7	c.C1206G	p.G402G	TGTTGGCCCAGTT	.	PASS	Atlas-SNP
AIPL1	23746	hgsc.bcm.edu	37	17	6330068	6330068	+	Silent	SNP	T	T	C	rs2292546	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	87	83	0	1	0	T|0.262;C|0.738	0.738	strong	AIPL1,NS,carcinoma,0,1	AIPL1	34	1	NM_014336	exon5	c.A651G	p.P217P	CTCCCATGGCTTC	.	PASS	Atlas-SNP
EBF4	57593	hgsc.bcm.edu	37	20	2686317	2686317	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	53	113	0	0.473214	0	.	.	none	.	.	.	.	NM_001110514	exon3	c.C220T	p.R74W	TACGACCGGCAGG	.	PASS	Atlas-SNP
OR2W3	343171	hgsc.bcm.edu	37	1	248059423	248059423	+	Missense_Mutation	SNP	C	C	T	rs10888267	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	135	251	0	0.555556	0	C|0.582;T|0.418	0.418	strong	.	OR2W3	113	.	NM_001001957	exon1	c.C535T	p.R179C	TTCCTGCGTGAGA	.	PASS	Atlas-SNP
ST6GAL1	6480	hgsc.bcm.edu	37	3	186760533	186760533	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	22	193	0	0.10628	0	.	.	none	.	ST6GAL1	36	.	NM_003032	exon3	c.C42T	p.V14V	CTGCGTCCTGGTC	.	PASS	Atlas-SNP
EDEM3	80267	hgsc.bcm.edu	37	1	184663537	184663537	+	Missense_Mutation	SNP	A	A	C	rs9425343	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	139	111	0	1	0	A|0.687;C|0.313	0.313	strong	.	EDEM3	63	.	NM_025191	exon20	c.T2459G	p.I820S	GATGAAATCTGTT	.	PASS	Atlas-SNP
LSP1	4046	hgsc.bcm.edu	37	11	1902771	1902771	+	Silent	SNP	T	T	C	rs147746785	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	89	163	0	0.978022	0	T|0.982;C|0.018	0.018	strong	.	LSP1	59	.	NM_001242932	exon4	c.T685C	p.L229L	GGCGCCTTGGACA	.	PASS	Atlas-SNP
RPGR	6103	hgsc.bcm.edu	37	X	38145021	38145021	+	Missense_Mutation	SNP	A	A	T	rs62636730	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	125	310	1	0.984252	0.00322581	A|0.983;T|0.017	0.017	strong	.	RPGR	175	.	NM_001034853	exon15	c.T3231A	p.N1077K	CCTTTCATTCTCT	.	PASS	Atlas-SNP
RECQL4	9401	hgsc.bcm.edu	37	8	145741765	145741765	+	Silent	SNP	G	G	A	rs4244613	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25	15	41	0	0.6	0	G|0.651;A|0.349	0.349	strong	.	RECQL4	75	.	NM_004260	exon5	c.C738T	p.S246S	ACGGATGCTGACT	.	PASS	Atlas-SNP
RHNO1	83695	hgsc.bcm.edu	37	12	2997397	2997397	+	Silent	SNP	G	G	A	rs2907608	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	60	166	0	0.454545	0	G|0.532;A|0.468	0.468	strong	.	.	.	.	NM_001257098	exon3	c.G489A	p.S163S	GTCATCGTCTGTG	.	PASS	Atlas-SNP
CAPS2	84698	hgsc.bcm.edu	37	12	75715330	75715330	+	Missense_Mutation	SNP	C	C	A	rs10879901	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	76	156	0	0.481013	0	C|0.808;A|0.192	0.192	strong	CAPS2_ENST00000409445,NS,carcinoma,0,1	CAPS2	96	1	NM_032606	exon6	c.G375T	p.L125F	TGCTGGCAAATTT	.	PASS	Atlas-SNP
TELO2	9894	hgsc.bcm.edu	37	16	1545448	1545448	+	Missense_Mutation	SNP	A	A	G	rs2235624	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	35	65	0	1	0	A|0.531;G|0.469	0.469	strong	.	TELO2	44	.	NM_016111	exon3	c.A437G	p.Q146R	AGACGCAGCCCGG	.	PASS	Atlas-SNP
EPHA3	2042	hgsc.bcm.edu	37	3	89521725	89521725	+	Silent	SNP	T	T	C	rs1054750	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	67	149	0	0.468531	0	T|0.835;C|0.165	0.165	strong	EPHA3,NS,malignant_melanoma,+2,1	EPHA3	501	1	NM_005233	exon16	c.T2802C	p.G934G	CACGGGTGTGGAG	.	PASS	Atlas-SNP
KIF2B	84643	hgsc.bcm.edu	37	17	51901385	51901385	+	Silent	SNP	C	C	T	rs3803826	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	56	104	0	0.504505	0	C|0.677;T|0.323	0.323	strong	.	KIF2B	254	.	NM_032559	exon1	c.C991T	p.L331L	TATGCTCTGGTGG	.	PASS	Atlas-SNP
ODF2L	57489	hgsc.bcm.edu	37	1	86852621	86852621	+	Silent	SNP	A	A	G	rs2390096	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	34	55	0	0.586207	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
PIGC	5279	hgsc.bcm.edu	37	1	172410967	172410967	+	Missense_Mutation	SNP	G	G	A	rs1063412	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	167	133	0	1	0	G|0.552;A|0.448	0.448	strong	.	PIGC	24	.	NM_153747	exon2	c.C796T	p.P266S	AGAATGGACACAG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076991	9076991	+	Silent	SNP	C	C	T	rs2591595	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	99	230	0	0.45	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
AGPHD1	123688	hgsc.bcm.edu	37	15	78825562	78825562	+	Silent	SNP	C	C	T	rs12906951	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	61	127	0	0.5	0	C|0.733;T|0.267	0.267	strong	AGPHD1,NS,carcinoma,0,1	AGPHD1	22	1	NM_001013619	exon5	c.C672T	p.H224H	CAATCACGGAGAT	.	PASS	Atlas-SNP
WWC2	80014	hgsc.bcm.edu	37	4	184192278	184192278	+	Missense_Mutation	SNP	G	G	T	rs11734376	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	54	149	0	0.375	0	G|0.902;T|0.098	0.098	strong	.	WWC2	78	.	NM_024949	exon16	c.G2446T	p.V816F	AGTGAGGTTTTCA	.	PASS	Atlas-SNP
CCS	9973	hgsc.bcm.edu	37	11	66373305	66373305	+	Silent	SNP	G	G	A	rs1127145	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	24	63	1	0.342857	0.015873	A|0.102;C|0.000;G|0.897	0.102	strong	CCS,NS,carcinoma,0,1	CCS	22	1	NM_005125	exon8	c.G804A	p.A268A	GTCAGCGCAGCCC	.	scavenged	Atlas-SNP
MUS81	80198	hgsc.bcm.edu	37	11	65629934	65629934	+	Missense_Mutation	SNP	G	G	C	rs545500	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	143	155	0	1	0	G|0.499;C|0.501	0.501	strong	.	MUS81	68	.	NM_025128	exon6	c.G539C	p.R180P	GTGCTCGACCCTG	.	PASS	Atlas-SNP
CES1	1066	hgsc.bcm.edu	37	16	55862883	55862883	+	Missense_Mutation	SNP	C	C	A	rs3826190	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	17	77	0	0.293103	0	C|0.632;A|0.368	0.368	strong	CES1_ENST00000360526,NS,carcinoma,0,1	CES1	78	1	NM_001025195	exon2	c.G56T	p.G19V	GGATGCCCTGCTG	.	PASS	Atlas-SNP
RNF41	10193	hgsc.bcm.edu	37	12	56601998	56601998	+	Silent	SNP	G	G	A	rs17118378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	96	160	0	0.448598	0	G|0.986;A|0.014	0.014	strong	.	RNF41	31	.	NM_005785	exon5	c.C447T	p.I149I	CTCTGCGATGCGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	26	64	0	0.361111	0	G|0.753;A|0.247	0.247	strong	.	NYNRIN	120	.	NM_025081	exon9	c.G2932A	p.A978T	GATGACGCTGACT	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54726816	54726816	+	Silent	SNP	A	A	T	rs80332440	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	369	116	341	1	0.314363	0.00293255	.	.	weak	LILRB3,NS,neuroblastoma,0,1	LILRB3	67	1	NM_006864	exon1	c.T33A	p.L11L	CTCACCAAGGCAG	.	PASS	Atlas-SNP
SLC12A8	84561	hgsc.bcm.edu	37	3	124906162	124906162	+	Silent	SNP	G	G	A	rs34985183	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	99	173	0	0.507692	0	G|0.974;A|0.026	0.026	strong	.	SLC12A8	81	.	NM_024628	exon4	c.C309T	p.S103S	GCCACCGCTGCCG	.	PASS	Atlas-SNP
AK7	122481	hgsc.bcm.edu	37	14	96871104	96871104	+	Missense_Mutation	SNP	G	G	A	rs2275554	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	42	97	0	0.385321	0	G|0.770;A|0.230	0.230	strong	.	AK7	69	.	NM_152327	exon3	c.G305A	p.R102Q	TCTCTCGAGAAGA	.	PASS	Atlas-SNP
WDR88	126248	hgsc.bcm.edu	37	19	33638586	33638586	+	Missense_Mutation	SNP	C	C	G	rs74994260	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	67	125	0	0.54918	0	C|0.953;G|0.047	0.047	strong	WDR88,lymph_node,lymphoid_neoplasm,0,1	WDR88	50	1	NM_173479	exon4	c.C512G	p.A171G	TGAGGGCCTGGGA	.	PASS	Atlas-SNP
CCDC41	51134	hgsc.bcm.edu	37	12	94761701	94761701	+	Silent	SNP	T	T	C	rs12426243	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	76	174	0	0.47205	0	T|0.891;C|0.109	0.109	strong	.	CCDC41	59	.	NM_016122	exon11	c.A1212G	p.R404R	TGCTAATCTGTTC	.	PASS	Atlas-SNP
TMEM132C	92293	hgsc.bcm.edu	37	12	129189941	129189941	+	Missense_Mutation	SNP	G	G	A	rs12424159	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	22	41	0	1	0	G|0.517;A|0.483	0.483	strong	TMEM132C_ENST00000435159,caecum,carcinoma,0,2	TMEM132C	142	2	NM_001136103	exon9	c.G2428A	p.G810R	CCCGGCGGGGACT	.	PASS	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	37	10	26355992	26355992	+	Missense_Mutation	SNP	A	A	G	rs3824699	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	42	86	0	0.42	0	A|0.318;G|0.682	0.682	strong	.	MYO3A	371	.	NM_017433	exon11	c.A1042G	p.I348V	CTAGAAATTTTGG	.	PASS	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	37	6	31378928	31378928	+	Silent	SNP	C	C	T	rs41553614	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	113	161	0	0.511312	0	C|0.987;T|0.013	0.013	strong	.	MICA	21	.	NM_001177519	exon3	c.C405T	p.Y135Y	CTACTACGATGGG	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47258763	47258763	+	Missense_Mutation	SNP	C	C	T	rs16993997	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	108	189	0	0.502326	0	C|0.855;N|0.001	.	strong	PREX1,NS,carcinoma,+2,1	PREX1	441	1	NM_020820	exon29	c.G3718A	p.V1240I	TCATGACTGGCCC	.	PASS	Atlas-SNP
C9orf72	203228	hgsc.bcm.edu	37	9	27556780	27556780	+	Silent	SNP	G	G	A	rs10122902	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	37	111	0	0.377551	0	G|0.789;A|0.211	0.211	strong	.	C9orf72	48	.	NM_018325	exon8	c.C870T	p.S290S	CACAAAGCTTCCA	.	PASS	Atlas-SNP
TMEM129	92305	hgsc.bcm.edu	37	4	1719294	1719294	+	Silent	SNP	T	T	C	rs2236786	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	60	141	0	0.495868	0	T|0.851;C|0.149	0.149	strong	.	TMEM129	10	.	NM_001127266	exon3	c.A789G	p.T263T	GGCAAATGTCTCC	.	PASS	Atlas-SNP
XPO4	64328	hgsc.bcm.edu	37	13	21429874	21429874	+	Silent	SNP	T	T	C	rs61737207	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	32	65	0	0.463768	0	T|0.964;C|0.036	0.036	strong	.	XPO4	153	.	NM_022459	exon4	c.A348G	p.L116L	TGCTAGTAGAATC	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104136316	104136316	+	Silent	SNP	C	C	T	rs2292688	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	118	199	0	0.485597	0	C|0.892;T|0.108	0.108	strong	.	STAB2	370	.	NM_017564	exon56	c.C6015T	p.F2005F	GAGATTCGGGCCT	.	PASS	Atlas-SNP
MDFI	4188	hgsc.bcm.edu	37	6	41621271	41621271	+	Silent	SNP	G	G	A	rs2230088	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	32	50	0	0.507937	0	G|0.892;A|0.108	0.108	strong	.	MDFI	19	.	NM_005586	exon5	c.G699A	p.L233L	CTGCCTGGAGATC	.	PASS	Atlas-SNP
B3GNTL1	146712	hgsc.bcm.edu	37	17	80904844	80904844	+	Missense_Mutation	SNP	C	C	T	rs7225887	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	34	80	0	0.425	0	C|0.840;T|0.160	0.160	strong	B3GNTL1,NS,carcinoma,+2,1	B3GNTL1	40	1	NM_001009905	exon12	c.G1021A	p.A341T	CAAAGGCGCCCCC	.	PASS	Atlas-SNP
FBXW5	54461	hgsc.bcm.edu	37	9	139838414	139838414	+	Missense_Mutation	SNP	C	C	T	rs200423543	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	21	98	0	0.7	0	.	.	weak	.	FBXW5	36	.	NM_018998	exon2	c.G122A	p.R41Q	TCGTCCCGCGACA	.	PASS	Atlas-SNP
DROSHA	29102	hgsc.bcm.edu	37	5	31515657	31515657	+	Missense_Mutation	SNP	G	G	A	rs55656741	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	137	111	1	1	0.00900901	G|0.675;A|0.325	0.325	strong	.	DROSHA	130	.	NM_013235	exon6	c.C962T	p.S321L	ACAACCGATAAAC	.	PASS	Atlas-SNP
AGR2	10551	hgsc.bcm.edu	37	7	16834597	16834597	+	Silent	SNP	A	A	G	rs6842	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	155	120	1	0.987261	0.00833333	T|0.132;G|0.313;C|0.057;A|0.498	0.313	strong	.	AGR2	14	.	NM_006408	exon7	c.T441C	p.N147N	GAGACGATTTGAA	.	PASS	Atlas-SNP
CNTN6	27255	hgsc.bcm.edu	37	3	1424718	1424718	+	Silent	SNP	G	G	A	rs2291101	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	96	199	0	0.477612	0	G|0.557;A|0.443	0.443	strong	.	CNTN6	245	.	NM_014461	exon18	c.G2259A	p.V753V	GAAAGTGTCATCT	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80900397	80900397	+	Silent	SNP	C	C	G	rs12824064	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	51	59	0	1	0	C|0.556;G|0.444	0.444	strong	.	PTPRQ	119	.	NM_001145026	exon13	c.C1989G	p.L663L	TACACTCAAAGGT	.	PASS	Atlas-SNP
C1orf186	440712	hgsc.bcm.edu	37	1	206239403	206239403	+	Silent	SNP	C	C	T	rs28602496	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	60	138	0	0.447761	0	C|0.907;T|0.093	0.093	strong	.	C1orf186	26	.	NM_001007544	exon6	c.G495A	p.A165A	ATATTCCGCTGGC	.	PASS	Atlas-SNP
SCN8A	6334	hgsc.bcm.edu	37	12	52080965	52080965	+	Silent	SNP	C	C	T	rs4761829	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	432	430	464	1	0.99537	0.00215517	C|0.176;T|0.824	0.824	strong	.	SCN8A	331	.	NM_014191	exon5	c.C576T	p.D192D	ACGGGACCCATGG	.	PASS	Atlas-SNP
GPR111	222611	hgsc.bcm.edu	37	6	47646842	47646842	+	Missense_Mutation	SNP	A	A	G	rs6907125	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	111	126	0	0.603261	0	A|0.480;G|0.520	0.520	strong	.	GPR111	123	.	NM_153839	exon5	c.A239G	p.Q80R	CCTGCCAGACTCT	.	PASS	Atlas-SNP
POU5F1	5460	hgsc.bcm.edu	37	6	31138107	31138107	+	Silent	SNP	G	G	A	rs1062630	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	155	132	0	0.987261	0	G|0.784;A|0.216	0.216	strong	POU5F1,colon,carcinoma,0,2	POU5F1	25	2	NM_002701	exon1	c.C291T	p.G97G	TGCTTCGCCCTCA	.	PASS	Atlas-SNP
KLHL32	114792	hgsc.bcm.edu	37	6	97562207	97562207	+	Silent	SNP	G	G	T	rs74787311	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	32	70	0	0.390244	0	G|0.960;T|0.040	0.040	strong	.	KLHL32	85	.	NM_052904	exon7	c.G1176T	p.V392V	TTTTGTGCTGGGT	.	PASS	Atlas-SNP
MYPN	84665	hgsc.bcm.edu	37	10	69959242	69959242	+	Missense_Mutation	SNP	C	C	A	rs7079481	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	103	210	0	0.5	0	C|0.623;A|0.377	0.377	strong	.	MYPN	189	.	NM_032578	exon17	c.C3403A	p.P1135T	ATTGACCCACTCA	.	PASS	Atlas-SNP
NME8	51314	hgsc.bcm.edu	37	7	37934147	37934147	+	Silent	SNP	A	A	T	rs41276027	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	255	109	248	0	0.427451	0	A|0.761;T|0.239	0.239	strong	.	.	.	.	NM_016616	exon16	c.A1479T	p.I493I	GCAAATAGAGAAA	.	PASS	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166154	41166154	+	Missense_Mutation	SNP	G	G	C	rs77704965	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	38	72	0	0.469136	0	G|0.956;C|0.044	0.044	strong	.	TREML2	41	.	NM_024807	exon2	c.C69G	p.D23E	TACACTGTCAGCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	124	179	0	0.616915	0	A|0.661;G|0.339	0.339	strong	.	RGSL1	111	.	NM_001137669	exon11	c.A2047G	p.I683V	ATCAGTATAGAGA	.	PASS	Atlas-SNP
NRP1	8829	hgsc.bcm.edu	37	10	33474644	33474644	+	Silent	SNP	G	G	A	rs61760432	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	78	182	0	0.438202	0	G|0.973;A|0.027	0.027	strong	.	NRP1	126	.	NM_003873	exon15	c.C2343T	p.F781F	GCCCTCGAAAATC	.	PASS	Atlas-SNP
CTTNBP2NL	55917	hgsc.bcm.edu	37	1	112999122	112999122	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	2	132	0	0.0162602	0	.	.	none	CTTNBP2NL,NS,carcinoma,+2,1	CTTNBP2NL	65	1	NM_018704	exon6	c.T1008C	p.P336P	GCTGCCTGGTCCT	.	scavenged	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13719022	13719022	+	Silent	SNP	T	T	G	rs30169	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	131	219	0	0.521912	0	T|0.596;G|0.404	0.404	strong	DNAH5,head_neck,malignant_melanoma,-2,1	DNAH5	868	1	NM_001369	exon72	c.A12468C	p.G4156G	CCGGAGTCCTTGT	.	PASS	Atlas-SNP
HPR	3250	hgsc.bcm.edu	37	16	72110872	72110872	+	Silent	SNP	G	G	A	rs147707949	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	106	206	0	0.422311	0	G|0.997;A|0.003	0.003	strong	HPR,NS,carcinoma,+2,1	HPR	43	1	NM_020995	exon5	c.G939A	p.A313A	GTACGCGGCTGGG	.	PASS	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	37	4	123664204	123664204	+	Missense_Mutation	SNP	G	G	A	rs309370	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	43	133	0	0.335938	0	G|0.542;A|0.458	0.458	strong	.	BBS12	63	.	NM_001178007	exon3	c.G1157A	p.R386Q	GCATGCGGCTTCA	.	PASS	Atlas-SNP
DMKN	93099	hgsc.bcm.edu	37	19	36002386	36002386	+	Missense_Mutation	SNP	C	C	T	rs117522133		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	22	69	0	0.278481	0	.	.	weak	.	DMKN	116	.	NM_001126058	exon5	c.G845A	p.S282N	CCGCCACTGCTGC	.	PASS	Atlas-SNP
HNF1A	6927	hgsc.bcm.edu	37	12	121437114	121437114	+	Silent	SNP	G	G	A	rs55834942	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	112	189	0	0.541063	0	G|0.860;A|0.140	0.140	strong	HNF1A,brain,glioma,0,4	HNF1A	302	4	NM_000545	exon8	c.G1545A	p.T515T	CCACACGGGCCTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511403	195511403	+	Missense_Mutation	SNP	C	C	T	rs78846267	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	56	164	7	0.208178	0.0426829	C|0.995;T|0.005	0.005	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G7048A	p.A2350T	GGGTGGCGTGACC	.	scavenged	Atlas-SNP
CFP	5199	hgsc.bcm.edu	37	X	47483800	47483800	+	Silent	SNP	G	G	A	rs1048118	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	71	104	0	0.986111	0	G|0.777;0|0.004	.	strong	.	CFP	43	.	NM_001145252	exon9	c.C1284T	p.N428N	GGTCACGTTCTTC	.	PASS	Atlas-SNP
CYP2A7	1549	hgsc.bcm.edu	37	19	41383137	41383137	+	Silent	SNP	C	C	T	rs148915421	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	115	268	0	0.445736	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
MYO7A	4647	hgsc.bcm.edu	37	11	76895787	76895787	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	71	0	0	1	.	.	.	none	.	MYO7A	164	.	NM_001127179	exon27	c.G3530A	p.R1177K	ACACCAGGGCCTG	.	PASS	Atlas-SNP
AIRE	326	hgsc.bcm.edu	37	21	45709568	45709568	+	Silent	SNP	C	C	T	rs1055311	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	131	178	0	0.539095	0	C|0.833;T|0.167	0.167	strong	.	AIRE	61	.	NM_000383	exon6	c.C681T	p.G227G	GGTTGGCGGGGAG	.	PASS	Atlas-SNP
OR52H1	390067	hgsc.bcm.edu	37	11	5566112	5566112	+	Silent	SNP	C	C	T	rs1995156	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	53	133	0	0.469027	0	C|0.517;T|0.483	0.483	strong	.	OR52H1	46	.	NM_001005289	exon1	c.G642A	p.T214T	GATGACCGTCATG	.	PASS	Atlas-SNP
OR2A4	79541	hgsc.bcm.edu	37	6	132022419	132022419	+	Silent	SNP	G	G	A	rs9483324		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	26	307	0	0.155689	0	.	.	weak	OR2A4,NS,carcinoma,0,1	OR2A4	17	1	NM_030908	exon1	c.C123T	p.N41N	GGTCCCGTTCCCC	.	scavenged	Atlas-SNP
KIF16B	55614	hgsc.bcm.edu	37	20	16486698	16486698	+	Silent	SNP	G	G	A	rs2295115	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	50	106	0	0.42735	0	G|0.760;A|0.240	0.240	strong	.	KIF16B	305	.	NM_001199865	exon8	c.C837T	p.L279L	AGTCACGAGGGAC	.	PASS	Atlas-SNP
C21orf58	54058	hgsc.bcm.edu	37	21	47734659	47734659	+	Missense_Mutation	SNP	G	G	A	rs13047478	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	92	128	0	0.968421	0	G|0.726;A|0.274	0.274	strong	.	C21orf58	25	.	NM_058180	exon5	c.C580T	p.P194S	GGTCTGGGGCCAG	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501767	501767	+	Missense_Mutation	SNP	C	C	T	rs78245161	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	47	156	0	0.218605	0	C|0.500;T|0.500	0.500	weak	MADCAM1,NS,carcinoma,0,1	MADCAM1	29	1	NM_130760	exon4	c.C766T	p.P256S	CAGGAGCCTCCCG	.	PASS	Atlas-SNP
BTG2	7832	hgsc.bcm.edu	37	1	203274867	203274867	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	11	95	0	0.126437	0	.	.	none	BTG2,lymph_node,lymphoid_neoplasm,-1,2	BTG2	16	2	NM_006763	exon1	c.G133T	p.A45S	CAGGAGGCACTCA	.	PASS	Atlas-SNP
CKAP4	10970	hgsc.bcm.edu	37	12	106633569	106633569	+	Missense_Mutation	SNP	C	C	T	rs3088113	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	37	43	0	0.544118	0	T|0.218;G|0.001;C|0.780	0.218	strong	CKAP4,NS,carcinoma,+1,1	CKAP4	49	1	NM_006825	exon2	c.G1042A	p.A348T	GCAGGGCGAGCCG	.	PASS	Atlas-SNP
PML	5371	hgsc.bcm.edu	37	15	74336633	74336633	+	Missense_Mutation	SNP	T	T	C	rs5742915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	31	70	0	0.424658	0	T|0.714;C|0.286	0.286	strong	.	PML	169	.	NM_033238	exon9	c.T1933C	p.F645L	GAAGCCTTCTTCA	.	PASS	Atlas-SNP
RNMTL1	55178	hgsc.bcm.edu	37	17	695061	695061	+	Missense_Mutation	SNP	G	G	A	rs75658007	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	64	127	0	0.603774	0	G|0.984;A|0.016	0.016	strong	.	RNMTL1	25	.	NM_018146	exon4	c.G1015A	p.V339I	GTTGAGGTTCAGA	.	PASS	Atlas-SNP
CDHR3	222256	hgsc.bcm.edu	37	7	105615426	105615426	+	Missense_Mutation	SNP	G	G	C	rs34426483	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	88	224	0	0.401826	0	G|0.824;C|0.176	0.176	strong	.	CDHR3	153	.	NM_152750	exon2	c.G183C	p.Q61H	TCCCCAGATAGTC	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	37	9	79891006	79891006	+	Missense_Mutation	SNP	T	T	C	rs78048112	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	13	36	0	0.351351	0	T|0.980;C|0.020	0.020	strong	.	VPS13A	735	.	NM_001018038	exon26	c.T2693C	p.V898A	ACCTTGTTGGAGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	42	165	0	0.313433	0	T|0.807;G|0.193	0.193	strong	.	LAMA1	458	.	NM_005559	exon14	c.A2021C	p.N674T	TTGTAGTTGGCTC	.	PASS	Atlas-SNP
IRAK3	11213	hgsc.bcm.edu	37	12	66605228	66605228	+	Missense_Mutation	SNP	A	A	G	rs1152888	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	229	232	0	0.995652	0	A|0.253;G|0.747	0.747	strong	.	IRAK3	75	.	NM_007199	exon5	c.A439G	p.I147V	TAAGGAATACTGC	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155219540	155219540	+	Missense_Mutation	SNP	C	C	A	rs141467714	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	79	160	0	0.496855	0	C|0.998;A|0.002	0.002	strong	.	DCHS2	594	.	NM_017639	exon18	c.G4561T	p.A1521S	CAGAAGCCTCATC	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47267480	47267480	+	Silent	SNP	A	A	G	rs41283556	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	45	98	0	0.478723	0	A|0.851;G|0.149	0.149	strong	.	PREX1	441	.	NM_020820	exon23	c.T2769C	p.C923C	GGTGTCACAGATG	.	PASS	Atlas-SNP
TSC22D2	9819	hgsc.bcm.edu	37	3	150128994	150128994	+	Silent	SNP	T	T	G	rs34647320	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	79	131	0	0.407216	0	T|0.866;G|0.134;A|0.000	0.134	strong	.	TSC22D2	42	.	NM_014779	exon1	c.T1857G	p.P619P	GCCGCCTGTTGCA	.	PASS	Atlas-SNP
NAT10	55226	hgsc.bcm.edu	37	11	34154641	34154641	+	Silent	SNP	C	C	T	rs2957518	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	86	94	0	1	0	C|0.152;T|0.848	0.848	strong	NAT10,NS,carcinoma,+2,1	NAT10	78	1	NM_024662	exon16	c.C1686T	p.P562P	GCCTCCCGTGCCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	77	217	1	0.363208	0.00460829	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	.	scavenged	Atlas-SNP
ZNF350	59348	hgsc.bcm.edu	37	19	52468551	52468551	+	Silent	SNP	T	T	G	rs4986772	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	84	148	1	0.541936	0.00675676	T|0.975;G|0.025	0.025	strong	ZNF350,NS,carcinoma,-2,1	ZNF350	48	1	NM_021632	exon5	c.A1155C	p.T385T	TTGCTTTGTGCTA	.	scavenged	Atlas-SNP
PLEKHG1	57480	hgsc.bcm.edu	37	6	151151762	151151762	+	Silent	SNP	G	G	A	rs76807130	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	45	97	0	0.436893	0	G|0.980;A|0.020	0.020	strong	.	PLEKHG1	97	.	NM_001029884	exon16	c.G1515A	p.P505P	AAGGCCGTCTCCT	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	701656	701656	+	Missense_Mutation	SNP	C	C	T	rs11642546	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	29	47	1	0.508772	0.0212766	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	.	scavenged	Atlas-SNP
PER1	5187	hgsc.bcm.edu	37	17	8053344	8053344	+	Silent	SNP	G	G	A	rs35826160	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	37	88	0	0.445783	0	G|0.984;A|0.016	0.016	strong	.	PER1	104	.	NM_002616	exon4	c.C474T	p.R158R	CCCAGAGCGGCCC	.	PASS	Atlas-SNP
TCEB3B	51224	hgsc.bcm.edu	37	18	44561630	44561630	+	Silent	SNP	C	C	T	rs61746775	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	47	160	0	0.456311	0	C|0.933;T|0.067	0.067	strong	.	TCEB3B	141	.	NM_016427	exon1	c.G6A	p.A2A	CCCTGCCGCCATC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	52	95	0	0.379562	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
DR1	1810	hgsc.bcm.edu	37	1	93826178	93826178	+	Missense_Mutation	SNP	A	A	T	rs3088371	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	348	344	370	0	0.988506	0	A|0.926;T|0.074	0.074	strong	.	DR1	10	.	NM_001938	exon3	c.A513T	p.E171D	TGAAGAAGATGAT	.	PASS	Atlas-SNP
TRRAP	8295	hgsc.bcm.edu	37	7	98495408	98495408	+	Silent	SNP	G	G	C	rs55702649	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	59	95	0	0.531532	0	G|0.972;C|0.028	0.028	strong	.	TRRAP	863	.	NM_001244580	exon8	c.G552C	p.V184V	CACAGTGCCTCCC	.	PASS	Atlas-SNP
LILRB5	10990	hgsc.bcm.edu	37	19	54759361	54759361	+	Missense_Mutation	SNP	T	T	C	rs12975366	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	283	126	228	2	0.44523	0.00877193	T|0.679;C|0.321	0.321	strong	LILRB5_ENST00000450632,colon,carcinoma,0,4	LILRB5	176	4	NM_001081442	exon5	c.A740G	p.D247G	CCGACATCAGAGC	.	scavenged	Atlas-SNP
NOC3L	64318	hgsc.bcm.edu	37	10	96104665	96104665	+	Missense_Mutation	SNP	T	T	G	rs3758526	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	32	85	0	0.363636	0	T|0.852;G|0.148	0.148	strong	.	NOC3L	67	.	NM_022451	exon12	c.A1415C	p.E472A	TCTCGCTCTAGTT	.	PASS	Atlas-SNP
SPRR1B	6699	hgsc.bcm.edu	37	1	153004853	153004853	+	Missense_Mutation	SNP	C	C	T	rs3795382	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	353	205	247	1	0.580737	0.00404858	C|0.497;T|0.503	0.503	strong	SPRR1B,head_neck,carcinoma,0,1	SPRR1B	18	1	NM_003125	exon2	c.C32T	p.T11I	CTTGCACCCCACC	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1538464	1538464	+	Missense_Mutation	SNP	C	C	T	rs2745103	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	110	217	0	0.488889	0	C|0.758;T|0.242	0.242	strong	.	PTX4	46	.	NM_001013658	exon1	c.G5A	p.G2E	CCACTCCCCATGA	.	PASS	Atlas-SNP
OR7G1	125962	hgsc.bcm.edu	37	19	9225662	9225662	+	Missense_Mutation	SNP	T	T	C	rs138190811	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	51	77	0	0.536842	0	T|0.999;C|0.001	0.001	strong	.	OR7G1	53	.	NM_001005192	exon1	c.A778G	p.I260V	AACTAATGTACAC	.	PASS	Atlas-SNP
ZNF761	388561	hgsc.bcm.edu	37	19	53959343	53959343	+	Missense_Mutation	SNP	G	G	A	rs2708742	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	46	71	0	0.613333	0	G|0.635;A|0.365	0.365	strong	.	ZNF761	104	.	NM_001008401	exon7	c.G1582A	p.G528S	GAGTGCGGCAAGA	.	PASS	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	37	14	74192791	74192791	+	Silent	SNP	C	C	T	rs10147537	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	82	171	0	0.433862	0	C|0.976;T|0.024	0.024	strong	.	.	.	.	NM_194278	exon8	c.G2430A	p.L810L	CTTCAGCAGCAGC	.	PASS	Atlas-SNP
NAPSA	9476	hgsc.bcm.edu	37	19	50863023	50863023	+	Silent	SNP	A	A	G	rs638294	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	70	141	0	0.454545	0	A|0.662;G|0.338	0.338	strong	.	NAPSA	38	.	NM_004851	exon6	c.T765C	p.P255P	GTAGGCAGGGACC	.	PASS	Atlas-SNP
AOAH	313	hgsc.bcm.edu	37	7	36763672	36763672	+	Missense_Mutation	SNP	C	C	T	rs2228410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	59	45	0	1	0	C|0.697;T|0.303	0.303	strong	.	AOAH	79	.	NM_001177507	exon1	c.G82A	p.D28N	GGTCATCGTTGGC	.	PASS	Atlas-SNP
PLXNA3	55558	hgsc.bcm.edu	37	X	153693811	153693811	+	Silent	SNP	C	C	T	rs5945429	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	55	88	0	1	0	C|0.615;T|0.385	0.385	strong	.	PLXNA3	156	.	NM_017514	exon12	c.C2289T	p.F763F	GGACTTCTCCGTG	.	PASS	Atlas-SNP
KIF4B	285643	hgsc.bcm.edu	37	5	154395682	154395682	+	Missense_Mutation	SNP	G	G	A	rs56080630	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	321	218	306	2	0.679128	0.00653595	G|0.888;A|0.112	0.112	strong	.	KIF4B	307	.	NM_001099293	exon1	c.G2263A	p.V755I	GTTATGGTCAGTA	.	PASS	Atlas-SNP
CAGE1	285782	hgsc.bcm.edu	37	6	7374207	7374207	+	Missense_Mutation	SNP	T	T	G	rs2876098	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	109	213	0	0.452282	0	T|0.882;G|0.118	0.118	strong	.	CAGE1	165	.	NM_001170693	exon5	c.A845C	p.E282A	CAGTTCTCCCGAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515038	195515038	+	Missense_Mutation	SNP	G	G	A	rs201206859		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	19	444	3	0.139706	0.00675676	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C3413T	p.P1138L	GTGACAGGAAGAG	.	scavenged	Atlas-SNP
DNAJC13	23317	hgsc.bcm.edu	37	3	132221139	132221139	+	Missense_Mutation	SNP	C	C	T	rs55825559	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	50	135	0	0.347222	0	C|0.981;T|0.019	0.019	strong	.	DNAJC13	253	.	NM_015268	exon40	c.C4543T	p.P1515S	AGTATTCCCCGCG	.	PASS	Atlas-SNP
OR2W3	343171	hgsc.bcm.edu	37	1	248059703	248059703	+	Missense_Mutation	SNP	T	T	A	rs11204545	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	262	151	264	0	0.576336	0	T|0.459;A|0.541	0.541	strong	.	OR2W3	113	.	NM_001001957	exon1	c.T815A	p.M272K	AGGGCATGTTCCT	.	PASS	Atlas-SNP
ZNF286B	729288	hgsc.bcm.edu	37	17	18565423	18565423	+	Missense_Mutation	SNP	G	G	A	rs9912852	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	260	122	262	0	0.469231	0	G|0.698;A|0.302	0.302	strong	ZNF286B_ENST00000545289,colon,carcinoma,+2,2	ZNF286B	75	2	NM_001145045	exon5	c.C1396T	p.P466S	TGTACGGTTTCTT	.	PASS	Atlas-SNP
CDH3	1001	hgsc.bcm.edu	37	16	68713823	68713823	+	Silent	SNP	C	C	A	rs2296408	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	122	141	0	0.983871	0	C|0.367;N|0.000	.	strong	.	CDH3	68	.	NM_001793	exon7	c.C813A	p.T271T	GTTCACCATTCAC	.	PASS	Atlas-SNP
USHBP1	83878	hgsc.bcm.edu	37	19	17373556	17373556	+	Silent	SNP	G	G	A	rs199682499	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	2	160	0	0.0137931	0	G|0.999;A|0.001	0.001	strong	USHBP1,colon,carcinoma,0,1	USHBP1	85	1	NM_031941	exon4	c.C447T	p.F149F	GCCTTCGAACTCC	.	scavenged	Atlas-SNP
TGFBRAP1	9392	hgsc.bcm.edu	37	2	105897003	105897003	+	Silent	SNP	G	G	A	rs2241799	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	240	121	221	0	0.504167	0	G|0.853;A|0.147	0.147	strong	.	TGFBRAP1	70	.	NM_004257	exon6	c.C1299T	p.N433N	GACCTCGTTCAGG	.	PASS	Atlas-SNP
HIGD1B	51751	hgsc.bcm.edu	37	17	42927721	42927721	+	Missense_Mutation	SNP	G	G	A	rs1071682	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	53	65	0	1	0	G|0.720;A|0.280	0.280	strong	.	HIGD1B	8	.	NM_001271880	exon4	c.G257A	p.S86N	TGTACAGCGATTA	.	PASS	Atlas-SNP
POLR2A	5430	hgsc.bcm.edu	37	17	7405937	7405937	+	Silent	SNP	C	C	T	rs2071504	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	57	76	0	0.483051	0	C|0.849;T|0.151	0.151	strong	.	POLR2A	157	.	NM_000937	exon16	c.C2673T	p.Y891Y	GCGCTACGGCGAA	.	PASS	Atlas-SNP
TRIM59	286827	hgsc.bcm.edu	37	3	160156951	160156951	+	Silent	SNP	C	C	T	rs1141023	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	98	134	0	0.550562	0	C|0.882;T|0.118	0.118	strong	.	TRIM59	42	.	NM_173084	exon3	c.G21A	p.E7E	AGTTAACTCTTCC	.	PASS	Atlas-SNP
EPHA2	1969	hgsc.bcm.edu	37	1	16475126	16475126	+	Silent	SNP	C	C	T	rs6678618	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	18	41	0	0.375	0	C|0.748;T|0.252	0.252	strong	EPHA2,NS,adenoma,0,1	EPHA2	102	1	NM_004431	exon3	c.G570A	p.A190A	GAGCAGCGCCACA	.	PASS	Atlas-SNP
MSL1	339287	hgsc.bcm.edu	37	17	38285693	38285693	+	Silent	SNP	C	C	A	rs143879261	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	61	93	0	0.575472	0	C|0.992;A|0.008	0.008	strong	.	MSL1	21	.	NM_001012241	exon4	c.C399A	p.T133T	GGACACCCCACCA	.	PASS	Atlas-SNP
CCDC63	160762	hgsc.bcm.edu	37	12	111342558	111342558	+	Silent	SNP	G	G	T	rs34300256	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	43	93	0	0.511905	0	G|0.810;T|0.190	0.190	strong	.	CCDC63	89	.	NM_152591	exon11	c.G1509T	p.V503V	CCCAGTGCTGGGG	.	PASS	Atlas-SNP
TUBA8	51807	hgsc.bcm.edu	37	22	18609642	18609642	+	Silent	SNP	C	C	T	rs362203	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	96	178	0	0.505263	0	C|0.928;T|0.072	0.072	strong	.	TUBA8	36	.	NM_018943	exon4	c.C897T	p.N299N	GCCCAACAGCCAG	.	PASS	Atlas-SNP
MYO1H	283446	hgsc.bcm.edu	37	12	109853349	109853349	+	Silent	SNP	A	A	G	rs73194218	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	36	99	0	0.493151	0	A|0.958;G|0.042	0.042	strong	.	MYO1H	98	.	NM_001101421	exon14	c.A1473G	p.P491P	TGGTCCAAAGGGC	.	PASS	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79059102	79059102	+	Missense_Mutation	SNP	C	C	T	rs148195966	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	3	57	0	0.0361446	0	.	.	weak	ADAMTS7,NS,neuroblastoma,0,1	ADAMTS7	142	1	NM_014272	exon19	c.G3151A	p.E1051K	CCAGCTCTGGAGC	.	scavenged	Atlas-SNP
NOS1AP	9722	hgsc.bcm.edu	37	1	162313735	162313735	+	Silent	SNP	C	C	T	rs3751284	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	470	271	355	0	0.576596	0	C|0.642;T|0.358	0.358	strong	.	NOS1AP	139	.	NM_014697	exon6	c.C564T	p.S188S	AGAGAGCGAGAGG	.	PASS	Atlas-SNP
GAB2	9846	hgsc.bcm.edu	37	11	77930345	77930345	+	Silent	SNP	T	T	C	rs2450122	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	47	92	0	0.484536	0	T|0.789;C|0.211	0.211	strong	.	GAB2	63	.	NM_080491	exon10	c.A2004G	p.S668S	AGGCTCTGAGGAC	.	PASS	Atlas-SNP
CPT1B	1375	hgsc.bcm.edu	37	22	51011376	51011376	+	Missense_Mutation	SNP	G	G	C	rs8142477	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	108	187	0	0.603352	0	G|0.699;C|0.301	0.301	strong	.	CPT1B	61	.	NM_001145135	exon11	c.C1280G	p.S427C	TCATAGGAGTAGG	.	PASS	Atlas-SNP
KCNJ18	100134444	hgsc.bcm.edu	37	17	21318826	21318826	+	Missense_Mutation	SNP	G	G	A	rs142399667	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	259	45	246	1	0.173745	0.00406504	G|0.993;A|0.007	0.007	strong	KCNJ12,NS,carcinoma,0,1	.	.	1	NM_001194958	exon3	c.G172A	p.A58T	GAGTTCGCCAACA	.	scavenged	Atlas-SNP
ANKRD61	100310846	hgsc.bcm.edu	37	7	6071060	6071060	+	Silent	SNP	G	G	A	rs4724769	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	87	139	0	0.508772	0	G|0.600;A|0.400	0.400	strong	.	.	.	.	NM_001271700	exon1	c.G54A	p.K18K	TGCCAAGTCCCTG	.	PASS	Atlas-SNP
CBLB	868	hgsc.bcm.edu	37	3	105438957	105438957	+	Silent	SNP	T	T	G	rs2305036	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	69	175	0	0.45098	0	T|0.786;G|0.214	0.214	strong	.	CBLB	118	.	NM_170662	exon10	c.A1341C	p.L447L	CAAGTCTAGCATC	.	PASS	Atlas-SNP
NPHP4	261734	hgsc.bcm.edu	37	1	5927169	5927169	+	Missense_Mutation	SNP	G	G	A	rs113445782	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	15	73	0	0.333333	0	G|0.992;A|0.008	0.008	strong	.	NPHP4	119	.	NM_015102	exon25	c.C3479T	p.P1160L	CCCACCGGAGCAC	.	PASS	Atlas-SNP
SLC38A9	153129	hgsc.bcm.edu	37	5	54960609	54960609	+	Silent	SNP	A	A	G	rs4865614	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	140	245	0	0.516605	0	A|0.433;G|0.567	0.567	strong	.	SLC38A9	50	.	NM_173514	exon8	c.T609C	p.L203L	GGAGAAAAGGAGA	.	PASS	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	37	1	86920904	86920904	+	Silent	SNP	A	A	G	rs2390057	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	133	163	0	1	0	A|0.686;G|0.314	0.314	strong	CLCA2,NS,carcinoma,0,1	CLCA2	102	1	NM_006536	exon14	c.A2526G	p.Q842Q	ACCCCAAATTTCC	.	PASS	Atlas-SNP
TFF2	7032	hgsc.bcm.edu	37	21	43771047	43771047	+	Missense_Mutation	SNP	T	T	G	rs116946921	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	122	207	0	0.497959	0	T|0.994;G|0.006	0.006	strong	.	TFF2	14	.	NM_005423	exon1	c.A20C	p.Q7P	AGGAGCTGGGCGT	.	PASS	Atlas-SNP
ARSE	415	hgsc.bcm.edu	37	X	2856155	2856155	+	Missense_Mutation	SNP	C	C	T	rs35143646	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	130	395	0	0.984848	0	C|0.503;T|0.497	0.497	strong	.	ARSE	43	.	NM_000047	exon9	c.G1270A	p.G424S	CCTCGCCGCCCGC	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204977	56204977	+	Silent	SNP	C	C	T	rs3809971	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	68	283	0	0.363636	0	C|0.526;T|0.474	0.474	strong	.	ALPK2	487	.	NM_052947	exon5	c.G2442A	p.T814T	AAAACACGTTCCT	.	PASS	Atlas-SNP
ARHGEF3	50650	hgsc.bcm.edu	37	3	56763619	56763619	+	Silent	SNP	A	A	G	rs6765444	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	192	197	0	0.989691	0	A|0.787;G|0.213	0.213	strong	.	ARHGEF3	128	.	NM_001128615	exon13	c.T1356C	p.N452N	GGATCCATTTTTG	.	PASS	Atlas-SNP
MTX3	345778	hgsc.bcm.edu	37	5	79282798	79282798	+	Missense_Mutation	SNP	G	G	C	rs9293796	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	72	84	0	0.55814	0	G|0.925;C|0.075	0.075	strong	.	MTX3	29	.	NM_001010891	exon7	c.C714G	p.S238R	ATAACTGCTCAGG	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7682605	7682605	+	Silent	SNP	C	C	T	rs17806045	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	117	216	1	0.481481	0.00462963	C|0.910;T|0.090	0.090	strong	.	DNAH2	498	.	NM_020877	exon35	c.C5586T	p.I1862I	CAACATCGAGGTG	.	PASS	Atlas-SNP
SRD5A1	6715	hgsc.bcm.edu	37	5	6652009	6652009	+	Silent	SNP	G	G	A	rs8192186	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	91	173	0	0.421296	0	G|0.652;A|0.348	0.348	strong	SRD5A1,NS,carcinoma,0,1	SRD5A1	31	1	NM_001047	exon2	c.G348A	p.A116A	GTTGGCGTGTACA	.	PASS	Atlas-SNP
INTS8	55656	hgsc.bcm.edu	37	8	95888307	95888307	+	Silent	SNP	C	C	T	rs1129152	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	76	144	0	0.444444	0	C|0.581;T|0.419	0.419	strong	.	INTS8	92	.	NM_017864	exon24	c.C2694T	p.A898A	GGTGGCCATTTTA	.	PASS	Atlas-SNP
CHAF1A	10036	hgsc.bcm.edu	37	19	4442336	4442336	+	Missense_Mutation	SNP	C	C	T	rs9352	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	297	124	205	0	0.417508	0	C|0.465;T|0.535	0.535	strong	.	CHAF1A	69	.	NM_005483	exon14	c.C2768T	p.A923V	ATGCTGCGGGTGA	.	PASS	Atlas-SNP
AHCTF1	25909	hgsc.bcm.edu	37	1	247053355	247053355	+	Missense_Mutation	SNP	G	G	C	rs116104791	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	22	45	0	0.349206	0	G|0.997;C|0.003	0.003	strong	.	AHCTF1	187	.	NM_015446	exon17	c.C2084G	p.S695C	TGCACAGAATCAT	.	PASS	Atlas-SNP
GDF9	2661	hgsc.bcm.edu	37	5	132198199	132198199	+	Silent	SNP	G	G	A	rs254286	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	28	39	0	1	0	G|0.516;A|0.484	0.484	strong	.	GDF9	50	.	NM_005260	exon2	c.C447T	p.T149T	TTCAACGGTAGTA	.	PASS	Atlas-SNP
OR10A2	341276	hgsc.bcm.edu	37	11	6891528	6891528	+	Silent	SNP	C	C	G	rs7117739	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	123	274	0	0.480469	0	C|0.680;G|0.320	0.320	strong	.	OR10A2	55	.	NM_001004460	exon1	c.C543G	p.L181L	AGCACTCTTTGAG	.	PASS	Atlas-SNP
DTD2	112487	hgsc.bcm.edu	37	14	31926584	31926584	+	Missense_Mutation	SNP	G	G	A	rs3087952		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	5	108	2	0.0574713	0.0185185	.	.	weak	C14orf126,third_ventricle,glioma,0,2	.	.	2	NM_080664	exon1	c.C16T	p.R6W	GAATCCGGCTACC	.	scavenged	Atlas-SNP
PPP6R2	9701	hgsc.bcm.edu	37	22	50878196	50878196	+	Missense_Mutation	SNP	G	G	A	rs13057311	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	57	153	0	0.327586	0	G|0.783;A|0.217	0.217	strong	.	PPP6R2	71	.	NM_001242898	exon20	c.G2195A	p.R732K	TGGTGAGGGACGT	.	PASS	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	37	2	215901774	215901774	+	Silent	SNP	C	C	T	rs17501837	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	47	97	0	0.516484	0	C|0.788;T|0.212	0.212	strong	ABCA12,NS,carcinoma,0,1	ABCA12	368	1	NM_173076	exon8	c.G888A	p.V296V	CTTCTGCACAACC	.	PASS	Atlas-SNP
IRF5	3663	hgsc.bcm.edu	37	7	128588712	128588712	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	16	93	0	0.161616	0	.	.	none	.	IRF5	40	.	NM_001098629	exon9	c.C1385T	p.S462L	AGATCTCAAACCC	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29822159	29822159	+	Silent	SNP	T	T	C	rs7076239	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	232	103	221	0	0.443966	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
ADH4	127	hgsc.bcm.edu	37	4	100052733	100052733	+	Silent	SNP	C	C	A	rs1126670	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	184	205	1	1	0.00487805	C|0.217;A|0.783	0.783	strong	ADH4,NS,carcinoma,-1,1	ADH4	35	1	NM_000670	exon6	c.G765T	p.P255P	CTGGATCGGTTTA	.	PASS	Atlas-SNP
AMH	268	hgsc.bcm.edu	37	19	2249634	2249634	+	Silent	SNP	G	G	A	rs61736575	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	15	48	0	0.5	0	G|0.939;A|0.061	0.061	strong	.	AMH	12	.	NM_000479	exon1	c.G303A	p.G101G	CTTCGGGGTCTGC	.	PASS	Atlas-SNP
DAGLB	221955	hgsc.bcm.edu	37	7	6449496	6449496	+	Missense_Mutation	SNP	T	T	C	rs2303361	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	77	114	0	0.596899	0	T|0.832;C|0.168	0.168	strong	.	DAGLB	74	.	NM_139179	exon15	c.A1991G	p.Q664R	ACCCCTTGTGCTG	.	PASS	Atlas-SNP
POMGNT1	55624	hgsc.bcm.edu	37	1	46660295	46660295	+	Silent	SNP	T	T	C	rs2292487	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	175	233	0	1	0	T|0.670;C|0.330	0.330	strong	.	POMGNT1	96	.	NM_017739	exon8	c.A681G	p.K227K	AGGTGATTTAGAA	.	PASS	Atlas-SNP
CCDC66	285331	hgsc.bcm.edu	37	3	56628031	56628031	+	Missense_Mutation	SNP	G	G	A	rs7637449	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	84	159	0	0.439791	0	G|0.660;A|0.340	0.340	strong	.	CCDC66	145	.	NM_001141947	exon10	c.G1379A	p.R460Q	ACAGACGACGACA	.	PASS	Atlas-SNP
HYI	81888	hgsc.bcm.edu	37	1	43917637	43917637	+	Silent	SNP	G	G	A	rs2251802	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	159	199	0	0.99375	0	G|0.679;A|0.321	0.321	strong	.	HYI	23	.	NM_001243526	exon5	c.C549T	p.D183D	CTGGGGGTCAGTG	.	PASS	Atlas-SNP
SORL1	6653	hgsc.bcm.edu	37	11	121448090	121448090	+	Silent	SNP	T	T	G	rs2070045	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	74	157	0	0.448485	0	T|0.760;G|0.240	0.240	strong	SORL1,NS,carcinoma,0,1	SORL1	218	1	NM_003105	exon25	c.T3561G	p.S1187S	CTGGTCTGATGAA	.	PASS	Atlas-SNP
DCTN1	1639	hgsc.bcm.edu	37	2	74589828	74589828	+	Missense_Mutation	SNP	C	C	T	rs200834352	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	50	84	0	0.581395	0	C|0.999;T|0.001	0.001	weak	.	DCTN1	110	.	NM_004082	exon30	c.G3558A	p.M1186I	TTGCTCCATAAGT	.	PASS	Atlas-SNP
ERN1	2081	hgsc.bcm.edu	37	17	62121480	62121480	+	Silent	SNP	T	T	C	rs196912	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	122	156	0	0.99187	0	T|0.405;C|0.595	0.595	strong	.	ERN1	102	.	NM_001433	exon22	c.A2802G	p.T934T	GCGAGATGTGAAG	.	PASS	Atlas-SNP
IL17RB	55540	hgsc.bcm.edu	37	3	53886912	53886912	+	Silent	SNP	C	C	T	rs3733075	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	93	199	0	0.510989	0	C|0.603;T|0.397	0.397	strong	.	IL17RB	27	.	NM_018725	exon5	c.C369T	p.Y123Y	TTCCTACATCGGC	.	PASS	Atlas-SNP
GLTSCR2	29997	hgsc.bcm.edu	37	19	48258772	48258772	+	Silent	SNP	G	G	A	rs11083895	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	15	16	0	1	0	G|0.469;A|0.531	0.531	strong	.	GLTSCR2	45	.	NM_015710	exon9	c.G1221A	p.G407G	GCTGGGGCGGCTC	.	PASS	Atlas-SNP
A1CF	29974	hgsc.bcm.edu	37	10	52595983	52595983	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	4	164	0	0.0268456	0	.	.	none	A1CF_ENST00000373995,NS,carcinoma,+1,4	A1CF	190	4	NM_001198820	exon7	c.T479C	p.I160T	GATAAGATTTCTT	.	scavenged	Atlas-SNP
SLC27A3	11000	hgsc.bcm.edu	37	1	153750738	153750738	+	Silent	SNP	G	G	C	rs34074094	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	52	49	0	0.590909	0	G|0.975;C|0.025	0.025	strong	.	SLC27A3	42	.	NM_024330	exon5	c.G1404C	p.V468V	GCAGGTGCTGGAG	.	PASS	Atlas-SNP
EFCAB7	84455	hgsc.bcm.edu	37	1	64021096	64021096	+	Missense_Mutation	SNP	G	G	A	rs2273367	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	60	134	0	0.4	0	G|0.849;A|0.151	0.151	strong	EFCAB7,right_upper_lobe,carcinoma,-1,1	EFCAB7	45	1	NM_032437	exon9	c.G1124A	p.R375K	GCTGTAGGCTGAG	.	PASS	Atlas-SNP
OVCH1	341350	hgsc.bcm.edu	37	12	29604392	29604392	+	Missense_Mutation	SNP	C	C	G	rs1347570	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	65	168	0	0.467626	0	C|0.461;G|0.539	0.539	strong	.	OVCH1	195	.	NM_183378	exon22	c.G2641C	p.A881P	TGCTTGCTGAAAC	.	PASS	Atlas-SNP
CXXC11	285093	hgsc.bcm.edu	37	2	242814009	242814009	+	Missense_Mutation	SNP	G	G	A	rs7420371	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	14	63	0	0.666667	0	G|0.729;A|0.271	0.271	strong	.	.	.	.	NM_173821	exon2	c.G302A	p.G101E	CACCCGGGGACTG	.	PASS	Atlas-SNP
CHRND	1144	hgsc.bcm.edu	37	2	233391306	233391306	+	Silent	SNP	G	G	A	rs55921262	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	69	107	0	0.6	0	G|0.977;A|0.023	0.023	strong	.	CHRND	67	.	NM_000751	exon2	c.G120A	p.K40K	CAACAAGGAGCTC	.	PASS	Atlas-SNP
ADCK4	79934	hgsc.bcm.edu	37	19	41220529	41220529	+	Silent	SNP	C	C	T	rs11673492	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	75	153	0	0.46875	0	C|0.854;T|0.146	0.146	strong	.	ADCK4	92	.	NM_001142555	exon2	c.G9A	p.L3L	CACCTTCAGCCAC	.	PASS	Atlas-SNP
ATP2A1	487	hgsc.bcm.edu	37	16	28909622	28909622	+	Silent	SNP	G	G	A	rs12596913	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	54	93	1	0.504673	0.0107527	G|0.974;A|0.026	0.026	strong	ATP2A1,NS,carcinoma,+1,1	ATP2A1	116	1	NM_004320	exon14	c.G1614A	p.T538T	ACTGACGGGGCCG	.	scavenged	Atlas-SNP
SLC35G2	80723	hgsc.bcm.edu	37	3	136574521	136574521	+	Silent	SNP	C	C	T	rs1052620	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	41	136	0	0.320312	0	C|0.857;T|0.143	0.143	strong	.	.	.	.	NM_025246	exon2	c.C1219T	p.L407L	GAAATACTAGACT	.	PASS	Atlas-SNP
OR52D1	390066	hgsc.bcm.edu	37	11	5510341	5510341	+	Silent	SNP	C	C	T	rs404280	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	165	183	0	1	0	C|0.460;T|0.540	0.540	strong	.	OR52D1	66	.	NM_001005163	exon1	c.C405T	p.Y135Y	AAGGTACACAACC	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32548522	32548522	+	Splice_Site	SNP	C	C	G	rs35121789	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	609	38	375	0	0.0623974	0	C|0.983;G|0.018	0.018	strong	.	HLA-DRB1	41	.	NM_002124	exon5	c.763+1G>C	.	TCCTCACCTTTCT	.	PASS	Atlas-SNP
KAT6A	7994	hgsc.bcm.edu	37	8	41790866	41790866	+	Silent	SNP	G	G	C	rs2980901	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	25	50	0	0.543478	0	G|0.964;C|0.036	0.036	strong	.	.	.	.	NM_001099412	exon18	c.C4872G	p.V1624V	AGGCTGGACGCTG	.	PASS	Atlas-SNP
MAST3	23031	hgsc.bcm.edu	37	19	18245512	18245512	+	Silent	SNP	C	C	T	rs2270623	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	71	173	0	0.473333	0	C|0.501;T|0.499	0.499	strong	.	MAST3	83	.	NM_015016	exon15	c.C1608T	p.I536I	GTTCATCGACAAG	.	PASS	Atlas-SNP
VWA2	340706	hgsc.bcm.edu	37	10	116050058	116050058	+	Missense_Mutation	SNP	G	G	C	rs45560935	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	74	113	0	0.490066	0	G|0.998;C|0.002	0.002	strong	.	VWA2	64	.	NM_001272046	exon13	c.G2182C	p.V728L	AGCTGCGTCCTGC	.	PASS	Atlas-SNP
TANC1	85461	hgsc.bcm.edu	37	2	160084473	160084473	+	Silent	SNP	A	A	C	rs2288110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	35	27	0	1	0	A|0.566;C|0.434	0.434	strong	.	TANC1	157	.	NM_033394	exon25	c.A4047C	p.T1349T	AAAAACAAATGTA	.	PASS	Atlas-SNP
MLL5	55904	hgsc.bcm.edu	37	7	104747899	104747899	+	Missense_Mutation	SNP	G	G	T	rs117986340	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	31	62	0	0.476923	0	G|0.969;T|0.031	0.031	strong	.	MLL5	173	.	NM_018682	exon21	c.G2995T	p.G999C	ACTATTGGTTATA	.	PASS	Atlas-SNP
TRMT2A	27037	hgsc.bcm.edu	37	22	20100158	20100158	+	Missense_Mutation	SNP	G	G	C	rs447017	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	475	213	501	1	0.448421	0.00199601	G|0.955;C|0.045	0.045	strong	.	TRMT2A	34	.	NM_022727	exon12	c.C1806G	p.S602R	TGGAGGGCTGTGG	.	PASS	Atlas-SNP
PPL	5493	hgsc.bcm.edu	37	16	4935636	4935636	+	Missense_Mutation	SNP	G	G	A	rs2075639	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	83	156	0	0.560811	0	G|0.915;A|0.085	0.085	strong	.	PPL	168	.	NM_002705	exon22	c.C3020T	p.A1007V	TCATCCGCCTGGG	.	PASS	Atlas-SNP
GRAMD3	65983	hgsc.bcm.edu	37	5	125696140	125696140	+	Silent	SNP	G	G	A	rs11241887	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	159	174	0	1	0	G|0.069;A|0.931	0.931	strong	.	GRAMD3	30	.	NM_001146319	exon1	c.G117A	p.P39P	GGGTCCGGACCTG	.	PASS	Atlas-SNP
AEN	64782	hgsc.bcm.edu	37	15	89169614	89169614	+	Silent	SNP	A	A	G	rs3743476	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	62	62	0	1	0	A|0.763;G|0.237	0.237	strong	.	AEN	29	.	NM_022767	exon2	c.A174G	p.E58E	TCCAGAACCAGGG	.	PASS	Atlas-SNP
ANKRD61	100310846	hgsc.bcm.edu	37	7	6075823	6075823	+	Missense_Mutation	SNP	A	A	T	rs2302334	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	43	99	0	0.5375	0	A|0.619;T|0.381	0.381	strong	.	.	.	.	NM_001271700	exon3	c.A1063T	p.M355L	GGAATCATGCTAC	.	PASS	Atlas-SNP
SULT2B1	6820	hgsc.bcm.edu	37	19	49102399	49102399	+	Silent	SNP	C	C	T	rs1132054	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	19	41	0	0.527778	0	C|0.595;A|0.003	.	strong	SULT2B1_ENST00000201586,NS,carcinoma,0,2	SULT2B1	72	2	NM_177973	exon7	c.C834T	p.C278C	GGTCTGCGGCGAC	.	PASS	Atlas-SNP
ARHGEF5	7984	hgsc.bcm.edu	37	7	144069807	144069807	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	587	114	881	2	0.194208	0.00227015	.	.	none	ARHGEF5,NS,carcinoma,-1,1	ARHGEF5	73	1	NM_005435	exon9	c.C4007T	p.S1336L	GCTCCTCGGAGGA	.	scavenged	Atlas-SNP
LPAR2	9170	hgsc.bcm.edu	37	19	19737686	19737686	+	Silent	SNP	C	C	T	rs33982830	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	9	6	25	0	0.666667	0	C|0.828;T|0.172	0.172	strong	LPAR2,NS,carcinoma,0,1	LPAR2	28	1	NM_004720	exon2	c.G408A	p.V136V	CAGCTGCACGGCC	.	PASS	Atlas-SNP
NBR1	4077	hgsc.bcm.edu	37	17	41361960	41361960	+	Missense_Mutation	SNP	A	A	G	rs8482	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	63	156	0	0.525	0	A|0.671;G|0.329	0.329	strong	.	NBR1	55	.	NM_031862	exon21	c.A2768G	p.H923R	TGGCCCATCTCTT	.	PASS	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	37	1	154842244	154842244	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	24	67	7	0.521739	0.104478	.	.	none	KCNN3,NS,carcinoma,+1,3	KCNN3	141	3	NM_001204087	exon1	c.T197A	p.L66H	TGCTGAAGCTGCG	.	scavenged	Atlas-SNP
PTGER1	5731	hgsc.bcm.edu	37	19	14583582	14583582	+	Silent	SNP	C	C	T	rs11668633	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	16	42	0	0.516129	0	C|0.862;T|0.138	0.138	strong	PTGER1,NS,carcinoma,0,1	PTGER1	5	1	NM_000955	exon3	c.G999A	p.L333L	CAGGAACAGTGGC	.	PASS	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79067099	79067099	+	Silent	SNP	G	G	C	rs142017909	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	12	70	0	0.111111	0	G|0.970;C|0.030	0.030	strong	ADAMTS7,NS,carcinoma,0,3	ADAMTS7	142	3	NM_014272	exon12	c.C1743G	p.R581R	GCGCTTGCGCTCA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9020154	9020154	+	Silent	SNP	A	A	G	rs11882881	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	100	219	0	0.520833	0	A|0.580;G|0.420	0.420	strong	.	MUC16	4315	.	NM_024690	exon21	c.T37341C	p.S12447S	CTTCTCAGACCTG	.	PASS	Atlas-SNP
FBXO46	23403	hgsc.bcm.edu	37	19	46216642	46216642	+	Missense_Mutation	SNP	G	G	T	rs11537711	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	54	85	0	0.5625	0	G|0.898;T|0.102	0.102	strong	.	FBXO46	34	.	NM_001080469	exon2	c.C112A	p.P38T	GCTCAGGGCAGGC	.	PASS	Atlas-SNP
MYPOP	339344	hgsc.bcm.edu	37	19	46394187	46394187	+	Silent	SNP	C	C	T	rs62111265	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	26	25	42	0	0.961538	0	C|0.872;G|0.000;T|0.128	0.128	strong	.	MYPOP	23	.	NM_001012643	exon3	c.G894A	p.L298L	TCCTGGCAGAAGG	.	PASS	Atlas-SNP
EPB41L4A	64097	hgsc.bcm.edu	37	5	111519740	111519740	+	Missense_Mutation	SNP	T	T	C	rs1560058	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	465	222	426	0	0.477419	0	T|0.278;C|0.722	0.722	strong	.	EPB41L4A	130	.	NM_022140	exon18	c.A1595G	p.N532S	CGCCTGTTGTTGG	.	PASS	Atlas-SNP
SEC14L1	6397	hgsc.bcm.edu	37	17	75190962	75190962	+	Silent	SNP	C	C	T	rs674402	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	71	134	0	0.5	0	C|0.643;T|0.357	0.357	strong	.	SEC14L1	81	.	NM_001204408	exon9	c.C678T	p.S226S	CCCCAGCGCACCT	.	PASS	Atlas-SNP
TUBGCP2	10844	hgsc.bcm.edu	37	10	135112940	135112940	+	Silent	SNP	C	C	T	rs2298120	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	21	35	0	0.456522	0	C|0.852;T|0.148	0.148	strong	.	TUBGCP2	79	.	NM_006659	exon4	c.G447A	p.T149T	CTGCAGCGTGGAG	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130832598	130832598	+	Missense_Mutation	SNP	C	C	T	rs3948036	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	604	67	504	2	0.110927	0.00396825	.	.	weak	POTEF,trunk,malignant_melanoma,0,3	POTEF	140	3	NM_001099771	exon17	c.G2447A	p.R816H	TTCTCGCGGTTGG	.	scavenged	Atlas-SNP
NPHP1	4867	hgsc.bcm.edu	37	2	110922703	110922703	+	Silent	SNP	C	C	T	rs11675767	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	177	162	0	1	0	C|0.575;T|0.425	0.425	strong	.	NPHP1	68	.	NM_207181	exon7	c.G654A	p.E218E	ACTTGACTCTTGG	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54725980	54725980	+	Silent	SNP	G	G	A	rs150024950	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	9	479	7	0.0424528	0.0146138	G|0.947;A|0.053	0.053	strong	LILRB3,NS,carcinoma,0,1	LILRB3	67	1	NM_006864	exon4	c.C378T	p.L126L	GGCTGAGAGGGTG	.	scavenged	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1052005	1052005	+	Silent	SNP	C	C	T	rs3764652	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	70	110	0	0.463576	0	C|0.607;T|0.393	0.393	strong	.	ABCA7	174	.	NM_019112	exon22	c.C3027T	p.A1009A	TGTGGCCGTGGTG	.	PASS	Atlas-SNP
ARSF	416	hgsc.bcm.edu	37	X	2990197	2990197	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	4	174	0	0.0481928	0	.	.	none	.	ARSF	97	.	NM_004042	exon3	c.T142C	p.Y48H	GGCTGCTACGGCA	.	PASS	Atlas-SNP
MED8	112950	hgsc.bcm.edu	37	1	43852667	43852667	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	2	137	0	0.0168067	0	.	.	none	MED8_ENST00000290663,NS,carcinoma,-2,4	MED8	38	4	NM_201542	exon4	c.G273A	p.R91R	AGTCTGCCGCTGT	.	scavenged	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	37	6	121642851	121642851	+	Missense_Mutation	SNP	C	C	T	rs7767455	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	93	255	0	0.458128	0	C|0.826;T|0.174	0.174	strong	.	C6orf170	146	.	NM_152730	exon2	c.G245A	p.R82Q	TGATTCCGATCAG	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124979789	124979789	+	Silent	SNP	T	T	G	rs872225	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	69	101	0	0.575	0	T|0.865;G|0.135	0.135	strong	.	NCOR2	475	.	NM_006312	exon3	c.A9C	p.G3G	TGTGGATCCCGAC	.	PASS	Atlas-SNP
ADAMDEC1	27299	hgsc.bcm.edu	37	8	24261526	24261526	+	Missense_Mutation	SNP	A	A	G	rs3765124	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	150	131	0	0.993378	0	A|0.687;G|0.313	0.313	strong	.	ADAMDEC1	69	.	NM_014479	exon13	c.A1331G	p.N444S	GTACCAATCTCTG	.	PASS	Atlas-SNP
MPPED1	758	hgsc.bcm.edu	37	22	43830996	43830996	+	Silent	SNP	C	C	T	rs2413761	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	86	112	0	1	0	C|0.615;T|0.385	0.385	strong	.	MPPED1	59	.	NM_001044370	exon3	c.C267T	p.Y89Y	AGGCTACACCCGC	.	PASS	Atlas-SNP
SEMA3F	6405	hgsc.bcm.edu	37	3	50197097	50197097	+	Silent	SNP	C	C	T	rs1046953	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	35	64	0	0.546875	0	C|0.626;T|0.374	0.374	strong	.	SEMA3F	62	.	NM_004186	exon2	c.C42T	p.T14T	ACTGACCGGGGCC	.	PASS	Atlas-SNP
ARHGEF17	9828	hgsc.bcm.edu	37	11	73076590	73076590	+	Silent	SNP	C	C	T	rs61749197	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	96	142	0	0.568047	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
ANKRD53	79998	hgsc.bcm.edu	37	2	71212405	71212405	+	Missense_Mutation	SNP	T	T	C	rs61732279	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	52	109	0	0.464286	0	T|0.841;C|0.159	0.159	strong	ANKRD53_ENST00000360589,NS,carcinoma,0,2	ANKRD53	55	2	NM_001115116	exon6	c.T1568C	p.L523P	CCACCCTGCCCTC	.	PASS	Atlas-SNP
TEFM	79736	hgsc.bcm.edu	37	17	29226228	29226228	+	Missense_Mutation	SNP	T	T	C	rs2433	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	62	58	0	1	0	T|0.876;C|0.124	0.124	strong	.	.	.	.	NM_024683	exon4	c.A1042G	p.I348V	AGGCAATAGCTTG	.	PASS	Atlas-SNP
DHRS7C	201140	hgsc.bcm.edu	37	17	9676148	9676148	+	Silent	SNP	C	C	T	rs2280489	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	17	32	0	0.354167	0	T|0.103;C|0.897	0.103	strong	.	DHRS7C	34	.	NM_001220493	exon5	c.G666A	p.P222P	GAAAGTCGGGCTC	.	PASS	Atlas-SNP
THSD4	79875	hgsc.bcm.edu	37	15	71953045	71953045	+	Silent	SNP	G	G	A	rs62024298	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	51	101	0	0.5	0	G|0.678;A|0.322	0.322	strong	.	THSD4	75	.	NM_024817	exon7	c.G1329A	p.T443T	CATCACGGAGATG	.	PASS	Atlas-SNP
PPAT	5471	hgsc.bcm.edu	37	4	57273840	57273840	+	Silent	SNP	C	C	G	rs11538098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	57	132	0	0.53271	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
BTNL2	56244	hgsc.bcm.edu	37	6	32363816	32363816	+	Missense_Mutation	SNP	T	T	C	rs2076530	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	32	70	0	0.367816	0	T|0.628;C|0.372	0.372	strong	.	BTNL2	50	.	NM_019602	exon5	c.A1078G	p.S360G	TCTTACTTACCAC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9028373	9028373	+	Missense_Mutation	SNP	G	G	A	rs56396897	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	77	207	0	0.396907	0	G|0.755;A|0.245	0.245	strong	.	MUC16	4315	.	NM_024690	exon11	c.C36419T	p.T12140M	ACTGCCGTGGCTG	.	PASS	Atlas-SNP
ULK4	54986	hgsc.bcm.edu	37	3	41996136	41996136	+	Missense_Mutation	SNP	T	T	C	rs2272007	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	134	150	0	1	0	T|0.314;C|0.686	0.686	strong	ULK4_ENST00000301831,NS,carcinoma,0,2	ULK4	150	2	NM_017886	exon2	c.A116G	p.K39R	GGCCTTTTGCACT	.	PASS	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	37	2	168106803	168106803	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	29	182	0	0.149485	0	.	.	none	.	XIRP2	914	.	NM_152381	exon9	c.G8901C	p.E2967D	AGCAGAGCCAAAT	.	PASS	Atlas-SNP
ZNF544	27300	hgsc.bcm.edu	37	19	58774094	58774094	+	Missense_Mutation	SNP	C	C	T	rs34914886	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	40	66	0	0.470588	0	C|0.989;T|0.011	0.011	strong	.	ZNF544	57	.	NM_014480	exon7	c.C2122T	p.R708W	CATCGGCGGACAC	.	PASS	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	37	6	111695268	111695268	+	Silent	SNP	C	C	T	rs455732	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	150	162	0	0.980392	0	C|0.621;T|0.379	0.379	strong	.	REV3L	386	.	NM_002912	exon13	c.G4290A	p.V1430V	TATGCACACAATC	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49425978	49425978	+	Silent	SNP	T	T	C	rs3741622	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	34	115	0	0.357895	0	T|0.725;C|0.275	0.275	strong	MLL2,NS,carcinoma,0,1	MLL2	1173	1	NM_003482	exon39	c.A12510G	p.P4170P	AGGTTGTGGCCCT	.	PASS	Atlas-SNP
INCENP	3619	hgsc.bcm.edu	37	11	61897404	61897404	+	Silent	SNP	C	C	T	rs112218336	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	46	93	0	0.489362	0	C|0.991;G|0.000;T|0.009	0.009	strong	.	INCENP	122	.	NM_001040694	exon4	c.C405T	p.T135T	GGCTACCATGGCA	.	PASS	Atlas-SNP
OVCH2	341277	hgsc.bcm.edu	37	11	7712523	7712523	+	Missense_Mutation	SNP	G	G	A	rs4633461	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	66	105	0	0.52381	0	G|0.826;A|0.174	0.174	strong	.	OVCH2	47	.	NM_198185	exon15	c.C1616T	p.T539I	GAGACTGTAGCCT	.	PASS	Atlas-SNP
MFSD9	84804	hgsc.bcm.edu	37	2	103343356	103343356	+	Silent	SNP	A	A	C	rs34997861	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	91	207	0	0.502762	0	A|0.999;C|0.001	0.001	strong	.	MFSD9	56	.	NM_032718	exon4	c.T375G	p.L125L	TCCGAGAAGGAGA	.	PASS	Atlas-SNP
ZFP106	64397	hgsc.bcm.edu	37	15	42734320	42734320	+	Silent	SNP	C	C	T	rs61753567	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	49	144	0	0.433628	0	C|0.950;T|0.050	0.050	strong	.	ZFP106	117	.	NM_022473	exon7	c.G3645A	p.V1215V	TGGTGGCACAGCA	.	PASS	Atlas-SNP
SNCG	6623	hgsc.bcm.edu	37	10	88722398	88722398	+	Missense_Mutation	SNP	A	A	T	rs9864	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	78	115	0	0.58209	0	A|0.789;T|0.211	0.211	strong	.	SNCG	8	.	NM_003087	exon4	c.A329T	p.E110V	AGGGTGAGGCATC	.	PASS	Atlas-SNP
COBLL1	22837	hgsc.bcm.edu	37	2	165551404	165551404	+	Missense_Mutation	SNP	G	G	A	rs17244632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	73	107	0	0.544776	0	G|0.913;A|0.087	0.087	strong	COBLL1,NS,carcinoma,0,1	COBLL1	122	1	NM_014900	exon12	c.C2612T	p.T871I	GTGCCAGTGTCTC	.	PASS	Atlas-SNP
C11orf45	219833	hgsc.bcm.edu	37	11	128772452	128772452	+	Silent	SNP	C	C	T	rs11221503	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	37	86	0	0.420455	0	C|0.869;T|0.131	0.131	strong	.	C11orf45	14	.	NM_145013	exon4	c.G438A	p.X146X	ACAGGGCTAGTTA	.	PASS	Atlas-SNP
MCPH1	79648	hgsc.bcm.edu	37	8	6302154	6302154	+	Missense_Mutation	SNP	G	G	T	rs2083914	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	64	132	0	0.528926	0	G|0.900;T|0.100	0.100	strong	.	MCPH1	65	.	NM_001172574	exon8	c.G911T	p.R304I	TGCAAAGAAATAT	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29912373	29912373	+	Missense_Mutation	SNP	T	T	G	rs1137110	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	444	57	413	1	0.128378	0.00242131	T|0.890;G|0.110	0.110	strong	HLA-A,NS,carcinoma,0,1	HLA-A	89	1	NM_001242758	exon5	c.T992G	p.M331R	CCGTGATGTGGAG	.	scavenged	Atlas-SNP
IFT52	51098	hgsc.bcm.edu	37	20	42225114	42225114	+	Silent	SNP	G	G	A	rs2664519	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	96	192	0	0.45933	0	G|0.265;A|0.735	0.735	strong	.	IFT52	40	.	NM_016004	exon3	c.G159A	p.V53V	TGGAGTGAAACTG	.	PASS	Atlas-SNP
TEX38	374973	hgsc.bcm.edu	37	1	47139103	47139103	+	Missense_Mutation	SNP	C	C	T	rs1025806	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	43	54	0	1	0	C|0.719;T|0.281	0.281	strong	ATPAF1-AS1_ENST00000569393,colon,carcinoma,0,2	.	.	2	NM_001145474	exon2	c.C596T	p.A199V	TCAATGCCAAGCC	.	PASS	Atlas-SNP
TMEM132C	92293	hgsc.bcm.edu	37	12	129190266	129190266	+	Missense_Mutation	SNP	G	G	A	rs112818862	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	56	73	0	0.602151	0	A|0.013;C|0.000;G|0.987	0.013	strong	.	TMEM132C	142	.	NM_001136103	exon9	c.G2753A	p.R918Q	CTCCGCGGGGCCT	.	PASS	Atlas-SNP
HLA-G	3135	hgsc.bcm.edu	37	6	29796376	29796376	+	Missense_Mutation	SNP	C	C	A	rs12722477	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	109	190	0	0.579787	0	C|0.838;A|0.162	0.162	strong	.	HLA-G	90	.	NM_002127	exon4	c.C400A	p.L134I	CGCCTCCTCCGCG	.	PASS	Atlas-SNP
PNMA3	29944	hgsc.bcm.edu	37	X	152226189	152226189	+	Silent	SNP	G	G	A	rs141778950	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	108	245	0	0.981818	0	G|0.999;A|0.001	0.001	strong	.	PNMA3	81	.	NM_013364	exon2	c.G777A	p.E259E	TCAGGAGGCAGGA	.	PASS	Atlas-SNP
PCDHA3	56145	hgsc.bcm.edu	37	5	140181734	140181734	+	Missense_Mutation	SNP	A	A	G	rs3733708	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	25	121	0	0.213675	0	G|0.521;N|0.000	0.521	strong	.	PCDHA3	396	.	NM_031497	exon1	c.A952G	p.I318V	TATGAAATCCAGG	.	PASS	Atlas-SNP
TYRO3	7301	hgsc.bcm.edu	37	15	41862436	41862436	+	Splice_Site	SNP	A	A	G	rs201371674	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	8	79	0	0.0930233	0	A|0.986;G|0.014	0.014	strong	.	TYRO3	169	.	NM_006293	exon11	c.1383-2A>G	.	TCCTTTAGGCAAG	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17017878	17017878	+	Missense_Mutation	SNP	G	G	A	rs56408444	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	86	166	0	0.480447	0	G|0.803;A|0.197	0.197	strong	CPAMD8,NS,carcinoma,0,1	CPAMD8	192	1	NM_015692	exon30	c.C4052T	p.A1351V	AGGGGCGCAGCAG	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14775859	14775859	+	Silent	SNP	G	G	A	rs10733289	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	78	284	0	0.397959	0	G|0.593;A|0.407	0.407	strong	.	FREM1	261	.	NM_144966	exon26	c.C4785T	p.A1595A	ATCTGTGGCCATG	.	PASS	Atlas-SNP
CACNA1E	777	hgsc.bcm.edu	37	1	181724381	181724381	+	Silent	SNP	C	C	T	rs41315709	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	41	54	0	0.476744	0	C|0.999;T|0.001	0.001	strong	CACNA1E_ENST00000367573,caecum,carcinoma,0,2	CACNA1E	778	2	NM_001205293	exon28	c.C3837T	p.F1279F	CGTCTTCGACTGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	28	84	0	0.341463	0	G|0.718;A|0.282	0.282	strong	.	ANKK1	83	.	NM_178510	exon6	c.G952A	p.G318R	CAGCCCGGGGAGG	.	PASS	Atlas-SNP
BBS10	79738	hgsc.bcm.edu	37	12	76741341	76741341	+	Missense_Mutation	SNP	C	C	T	rs142863601	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	56	115	0	0.538462	0	C|0.994;T|0.006	0.006	strong	.	BBS10	46	.	NM_024685	exon2	c.G424A	p.D142N	TACCGTCTAATAT	.	PASS	Atlas-SNP
RNF5	6048	hgsc.bcm.edu	37	6	32148031	32148031	+	Silent	SNP	A	A	G	rs1062070	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	26	89	0	0.298851	0	A|0.860;G|0.140	0.140	strong	.	RNF5	16	.	NM_006913	exon6	c.A471G	p.P157P	TCACCCAGCCTCC	.	PASS	Atlas-SNP
SNTG1	54212	hgsc.bcm.edu	37	8	51571172	51571172	+	Silent	SNP	G	G	A	rs1911830	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	135	171	0	0.992647	0	G|0.449;A|0.551	0.551	strong	.	SNTG1	304	.	NM_018967	exon15	c.G987A	p.T329T	CTGGACGAGAGCA	.	PASS	Atlas-SNP
TMEM8A	58986	hgsc.bcm.edu	37	16	427784	427784	+	Silent	SNP	G	G	A	rs11641742	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	136	164	0	0.992701	0	G|0.455;A|0.545	0.545	strong	.	TMEM8A	49	.	NM_021259	exon2	c.C186T	p.Y62Y	ACTGCCGTACCAG	.	PASS	Atlas-SNP
CNGA3	1261	hgsc.bcm.edu	37	2	98986510	98986510	+	Silent	SNP	T	T	C	rs6727412	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	44	58	0	0.55	0	T|0.869;C|0.131	0.131	strong	.	CNGA3	118	.	NM_001298	exon2	c.T72C	p.D24D	CCGAGATCTCAAT	.	PASS	Atlas-SNP
PABPC4L	132430	hgsc.bcm.edu	37	4	135121368	135121368	+	Silent	SNP	G	G	T	rs2044116	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	67	63	0	0.985294	0	G|0.347;T|0.653	0.653	strong	.	PABPC4L	60	.	NM_001114734	exon2	c.C981A	p.V327V	TCGCTCGACTTTC	.	PASS	Atlas-SNP
DEF6	50619	hgsc.bcm.edu	37	6	35288696	35288696	+	Silent	SNP	C	C	T	rs34278260	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	39	81	0	0.414894	0	C|0.970;T|0.030	0.030	strong	.	DEF6	36	.	NM_022047	exon10	c.C1617T	p.N539N	CACCAACGTGAAA	.	PASS	Atlas-SNP
CEP350	9857	hgsc.bcm.edu	37	1	180010911	180010911	+	Missense_Mutation	SNP	A	A	G	rs16855164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	494	184	411	0	0.37247	0	A|0.905;G|0.095	0.095	strong	.	CEP350	418	.	NM_014810	exon19	c.A4336G	p.T1446A	CTCACCACAGACG	.	PASS	Atlas-SNP
LSS	4047	hgsc.bcm.edu	37	21	47626602	47626602	+	Silent	SNP	G	G	A	rs111779817	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	28	53	0	0.538462	0	G|0.997;A|0.003	0.003	strong	.	LSS	50	.	NM_001001438	exon16	c.C1548T	p.N516N	CGAGGGGTTCAGC	.	PASS	Atlas-SNP
ARFGEF2	10564	hgsc.bcm.edu	37	20	47630449	47630449	+	Silent	SNP	C	C	T	rs2281582	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	61	110	0	0.495935	0	C|0.847;T|0.153	0.153	strong	ARFGEF2,NS,carcinoma,0,1	ARFGEF2	160	1	NM_006420	exon30	c.C4131T	p.I1377I	CAGAATCGTGTTT	.	PASS	Atlas-SNP
MED15	51586	hgsc.bcm.edu	37	22	20922809	20922809	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	52	90	0	0.553191	0	.	.	none	.	MED15	68	.	NM_015889	exon8	c.T1043C	p.V348A	TCAAGGTCCGAGC	.	PASS	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50532812	50532812	+	Missense_Mutation	SNP	A	A	G	rs11101093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	107	189	0	0.475556	0	A|0.908;G|0.092	0.092	strong	.	C10orf71	179	.	NM_001135196	exon3	c.A2222G	p.D741G	CATTTGATGATCA	.	PASS	Atlas-SNP
KNG1	3827	hgsc.bcm.edu	37	3	186440243	186440243	+	Silent	SNP	G	G	A	rs1469859	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	33	40	0	0.568965	0	G|0.724;A|0.276	0.276	strong	.	KNG1	129	.	NM_000893	exon3	c.G324A	p.T108T	ATGCACGGCAACC	.	PASS	Atlas-SNP
TMEM63B	55362	hgsc.bcm.edu	37	6	44117664	44117664	+	Silent	SNP	C	C	T	rs4714762	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250	121	209	0	0.484	0	C|0.910;G|0.000;T|0.089	0.089	strong	TMEM63B,NS,carcinoma,0,1	TMEM63B	77	1	NM_018426	exon16	c.C1482T	p.I494I	CACCATCGTCTAC	.	PASS	Atlas-SNP
ZNF280A	129025	hgsc.bcm.edu	37	22	22868773	22868773	+	Silent	SNP	G	G	A	rs361737	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	284	132	315	0	0.464789	0	G|0.453;A|0.547	0.547	strong	ZNF280A,NS,adenoma,0,1	ZNF280A	67	1	NM_080740	exon2	c.C1182T	p.Y394Y	GCACACGTAGGGC	.	PASS	Atlas-SNP
CCDC74A	90557	hgsc.bcm.edu	37	2	132290464	132290464	+	Missense_Mutation	SNP	G	G	A	rs13660	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	109	255	0	0.434263	0	G|0.866;A|0.134	0.134	strong	CCDC74A,NS,carcinoma,-1,3	CCDC74A	44	3	NM_138770	exon6	c.G904A	p.G302R	CTGGAAGGGAGCC	.	PASS	Atlas-SNP
CCDC9	26093	hgsc.bcm.edu	37	19	47770032	47770032	+	Silent	SNP	C	C	T	rs60383222	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	81	156	0	0.503106	0	C|0.880;T|0.120	0.120	strong	.	CCDC9	37	.	NM_015603	exon8	c.C885T	p.A295A	GGATGCCGAGAAG	.	PASS	Atlas-SNP
BOD1L1	259282	hgsc.bcm.edu	37	4	13601337	13601337	+	Missense_Mutation	SNP	G	G	A	rs3733557	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	48	113	0	0.484848	0	G|0.894;A|0.106	0.106	strong	BOD1L,NS,carcinoma,0,1	.	.	1	NM_148894	exon10	c.C7187T	p.P2396L	GGACCCGGTTCTT	.	PASS	Atlas-SNP
POM121L12	285877	hgsc.bcm.edu	37	7	53103554	53103554	+	Missense_Mutation	SNP	C	C	G	rs11238247	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	17	59	0	0.386364	0	C|0.588;G|0.412	0.412	strong	.	POM121L12	146	.	NM_182595	exon1	c.C190G	p.Q64E	CATATTCAGTACT	.	PASS	Atlas-SNP
FAM129C	199786	hgsc.bcm.edu	37	19	17654182	17654182	+	Silent	SNP	G	G	A	rs76814516	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	94	210	0	0.522222	0	G|0.945;A|0.055	0.055	strong	.	FAM129C	110	.	NM_001098524	exon12	c.G1479A	p.T493T	GACGACGGCCCTC	.	PASS	Atlas-SNP
KRT32	3882	hgsc.bcm.edu	37	17	39623431	39623431	+	Silent	SNP	C	C	T	rs117028403	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	52	102	0	0.530612	0	C|0.981;T|0.019	0.019	strong	.	KRT32	57	.	NM_002278	exon1	c.G147A	p.S49S	GCAGACCGAAGGC	.	PASS	Atlas-SNP
CABYR	26256	hgsc.bcm.edu	37	18	21739725	21739725	+	Silent	SNP	T	T	C	rs1049684	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	78	107	0	0.975	0	T|0.561;C|0.439	0.439	strong	.	CABYR	51	.	NM_153769	exon5	c.T831C	p.P277P	TCTTCCTGGACAT	.	PASS	Atlas-SNP
ZNF665	79788	hgsc.bcm.edu	37	19	53668697	53668697	+	Missense_Mutation	SNP	T	T	C	rs45499997	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	54	77	0	0.519231	0	T|0.958;C|0.042	0.042	strong	.	ZNF665	136	.	NM_024733	exon4	c.A1046G	p.N349S	CATTCATTACATT	.	PASS	Atlas-SNP
ATP2B1	490	hgsc.bcm.edu	37	12	90028901	90028901	+	Silent	SNP	T	T	C	rs1050395	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	51	137	0	0.443478	0	T|0.837;C|0.163	0.163	strong	.	ATP2B1	191	.	NM_001001323	exon3	c.A534G	p.E178E	CTGTTTTTCCTTA	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130832389	130832389	+	Missense_Mutation	SNP	G	G	T	rs28583670		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	439	48	283	1	0.109339	0.00353357	.	.	weak	POTEF,NS,carcinoma,0,1	POTEF	140	1	NM_001099771	exon17	c.C2656A	p.P886T	AGTCAGGCAGTTC	.	scavenged	Atlas-SNP
GRIN3A	116443	hgsc.bcm.edu	37	9	104433235	104433235	+	Missense_Mutation	SNP	C	C	T	rs10989589	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	127	298	1	0.479245	0.0033557	C|0.670;T|0.330	0.330	strong	GRIN3A,caecum,carcinoma,+1,1	GRIN3A	186	1	NM_133445	exon3	c.G1459A	p.G487R	TCTTTCCCCCCTG	.	PASS	Atlas-SNP
C8orf48	157773	hgsc.bcm.edu	37	8	13424583	13424583	+	Missense_Mutation	SNP	C	C	T	rs13273355	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	28	76	0	0.459016	0	C|0.183;N|0.000	.	strong	.	C8orf48	18	.	NM_001007090	exon1	c.C83T	p.S28F	AGAACTCTACTGA	.	PASS	Atlas-SNP
MYOC	4653	hgsc.bcm.edu	37	1	171621525	171621525	+	Missense_Mutation	SNP	C	C	T	rs2234926	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	408	160	335	0	0.392157	0	C|0.909;T|0.091	0.091	strong	.	MYOC	69	.	NM_000261	exon1	c.G227A	p.R76K	CTGTCTCTCTGTA	.	PASS	Atlas-SNP
KIF2B	84643	hgsc.bcm.edu	37	17	51900729	51900729	+	Missense_Mutation	SNP	C	C	T	rs3803824	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	34	64	0	0.523077	0	C|0.741;T|0.259	0.259	strong	KIF2B,NS,carcinoma,+1,3	KIF2B	254	3	NM_032559	exon1	c.C335T	p.A112V	GTACCGCCACGAA	.	PASS	Atlas-SNP
ACY3	91703	hgsc.bcm.edu	37	11	67414492	67414492	+	Missense_Mutation	SNP	C	C	T	rs948445	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	14	54	0	0.5	0	C|0.295;T|0.705	0.705	strong	.	ACY3	27	.	NM_080658	exon3	c.G23A	p.R8Q	GGCTCCCGGGGCA	.	PASS	Atlas-SNP
C1orf173	127254	hgsc.bcm.edu	37	1	75097426	75097426	+	Missense_Mutation	SNP	G	G	C	rs11210490	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	260	257	321	0	0.988462	0	G|0.588;C|0.412	0.412	strong	.	C1orf173	380	.	NM_001002912	exon7	c.C790G	p.P264A	CATTTGGAGCAGT	.	PASS	Atlas-SNP
ABCC12	94160	hgsc.bcm.edu	37	16	48122582	48122582	+	Missense_Mutation	SNP	G	G	A	rs7193955	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	101	106	0	1	0	G|0.395;A|0.605	0.605	strong	ABCC12,colon,carcinoma,0,1	ABCC12	190	1	NM_033226	exon24	c.C3349T	p.R1117C	CCCCACGGCTGGG	.	PASS	Atlas-SNP
SERPINA9	327657	hgsc.bcm.edu	37	14	94933695	94933695	+	Missense_Mutation	SNP	G	G	A	rs17090921	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	47	67	0	0.635135	0	G|0.689;A|0.311	0.311	strong	.	SERPINA9	105	.	NM_175739	exon3	c.C707T	p.P236L	TATTCAGGGTGAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513826	195513826	+	Missense_Mutation	SNP	G	G	A	rs202029925		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	30	174	0	0.208333	0	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C4625T	p.P1542L	GAGGAAGGGCTAG	.	PASS	Atlas-SNP
RNMTL1	55178	hgsc.bcm.edu	37	17	695062	695062	+	Missense_Mutation	SNP	T	T	A	rs80220493	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	62	125	0	0.596154	0	T|0.984;A|0.016	0.016	strong	.	RNMTL1	25	.	NM_018146	exon4	c.T1016A	p.V339D	TTGAGGTTCAGAG	.	PASS	Atlas-SNP
STAG3	10734	hgsc.bcm.edu	37	7	99778227	99778227	+	Missense_Mutation	SNP	G	G	T	rs11531577	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	36	115	0	0.418605	0	G|0.839;T|0.161	0.161	strong	.	STAG3	121	.	NM_012447	exon2	c.G48T	p.L16F	GGCCTTGTCTGCA	.	PASS	Atlas-SNP
HEXIM1	10614	hgsc.bcm.edu	37	17	43227214	43227214	+	Silent	SNP	T	T	C	rs1044977	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	41	83	0	0.518987	0	T|0.817;C|0.183	0.183	strong	.	HEXIM1	25	.	NM_006460	exon1	c.T657C	p.D219D	GCCGGATCTCAAA	.	PASS	Atlas-SNP
GOLGA2	2801	hgsc.bcm.edu	37	9	131019738	131019738	+	Missense_Mutation	SNP	T	T	C	rs2240961	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	35	68	0	0.538462	0	T|0.875;C|0.125	0.125	strong	.	GOLGA2	69	.	NM_004486	exon25	c.A2704G	p.R902G	GGAATCTGCCATG	.	PASS	Atlas-SNP
C14orf182	283551	hgsc.bcm.edu	37	14	50472405	50472405	+	Missense_Mutation	SNP	G	G	A	rs6572635	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	293	148	239	2	0.505119	0.0083682	G|0.739;A|0.261	0.261	strong	C14orf182,bladder,carcinoma,+1,1	C14orf182	8	1	NM_001012706	exon1	c.C113T	p.P38L	CCTCTCGGTTCGT	.	scavenged	Atlas-SNP
ZNF354C	30832	hgsc.bcm.edu	37	5	178503472	178503472	+	Silent	SNP	C	C	T	rs116407910	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	287	164	290	0	0.571429	0	C|0.996;T|0.004	0.004	strong	ZNF354C,NS,carcinoma,+2,1	ZNF354C	77	1	NM_014594	exon3	c.C54T	p.A18A	TGTGGCCGTGTTC	.	PASS	Atlas-SNP
SEPT12	124404	hgsc.bcm.edu	37	16	4833970	4833970	+	Silent	SNP	C	C	T	rs759991	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	64	144	0	0.5	0	C|0.728;T|0.272	0.272	strong	SEPT12,NS,carcinoma,0,1	SEPT12	40	1	NM_144605	exon5	c.G474A	p.V158V	GCAGTGCACCCGG	.	PASS	Atlas-SNP
UGT2B15	7366	hgsc.bcm.edu	37	4	69512847	69512847	+	Missense_Mutation	SNP	T	T	G	rs4148269	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	284	284	299	0	1	0	T|0.588;G|0.412	0.412	strong	.	UGT2B15	48	.	NM_001076	exon6	c.A1568C	p.K523T	TTTCCTTTTTTGG	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	145007187	145007187	+	Missense_Mutation	SNP	G	G	A	rs11136336	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	38	105	0	0.506667	0	G|0.772;A|0.228	0.228	strong	.	PLEC	1144	.	NM_201380	exon14	c.C1922T	p.A641V	ACCTGGGCCACCT	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32049423	32049423	+	Missense_Mutation	SNP	C	C	T	rs12211410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	107	144	0	0.551546	0	C|0.904;T|0.096	0.096	strong	.	TNXB	553	.	NM_019105	exon10	c.G3764A	p.R1255H	TCAGGGCGGGGGG	.	PASS	Atlas-SNP
LARS	51520	hgsc.bcm.edu	37	5	145523105	145523105	+	Silent	SNP	G	G	A	rs11540217	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	18	65	0	0.3	0	G|0.794;A|0.206	0.206	strong	.	LARS	100	.	NM_020117	exon19	c.C1747T	p.L583L	AAGGCAGGTGAGT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9085643	9085643	+	Missense_Mutation	SNP	A	A	G	rs1574479	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	37	66	0	0.513889	0	A|0.810;G|0.190	0.190	strong	.	MUC16	4315	.	NM_024690	exon1	c.T6172C	p.S2058P	GGAGAGATGTAGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	101	201	0	0.442982	0	A|0.502;G|0.496	0.496	strong	.	CALD1	150	.	NM_033138	exon5	c.A1190G	p.H397R	AAAAACATGCCAT	.	PASS	Atlas-SNP
MYH13	8735	hgsc.bcm.edu	37	17	10223793	10223793	+	Silent	SNP	C	C	T	rs35783712	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	44	100	0	0.427184	0	C|0.970;T|0.030	0.030	strong	.	MYH13	533	.	NM_003802	exon25	c.G3132A	p.Q1044Q	CTTCTCCTGCTCT	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	3072107	3072107	+	Silent	SNP	G	G	C	rs73183587	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	90	204	0	0.422535	0	G|0.909;C|0.091	0.091	strong	.	CSMD1	1469	.	NM_033225	exon30	c.C4779G	p.G1593G	CTTATAGCCAGAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	56	140	0	0.35443	0	G|0.928;A|0.072	0.072	strong	.	POLE	416	.	NM_006231	exon8	c.C755T	p.A252V	GGAAAAGCATTTC	.	PASS	Atlas-SNP
FAM171B	165215	hgsc.bcm.edu	37	2	187626338	187626338	+	Silent	SNP	C	C	T	rs13026081	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	117	251	1	0.453488	0.00398406	C|0.809;N|0.000	.	strong	.	FAM171B	146	.	NM_177454	exon8	c.C1269T	p.D423D	TGAGGACAAGTCG	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26164408	26164408	+	Silent	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	38	85	0	0.457831	0	.	.	none	.	MYO18B	322	.	NM_032608	exon4	c.C525G	p.A175A	TGACGCCCCCCCT	.	PASS	Atlas-SNP
SLC18A2	6571	hgsc.bcm.edu	37	10	119003546	119003546	+	Silent	SNP	G	G	A	rs11568722	bycluster;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	55	121	0	0.555556	0	G|1.000;A|0.000	0.000	weak	SLC18A2,NS,carcinoma,+1,1	SLC18A2	58	1	NM_003054	exon3	c.G186A	p.T62T	CCAGACGGCCAGG	.	PASS	Atlas-SNP
HCRTR1	3061	hgsc.bcm.edu	37	1	32092525	32092525	+	Missense_Mutation	SNP	A	A	G	rs2271933	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	33	81	1	0.578947	0.0123457	A|0.531;G|0.469	0.469	strong	HCRTR1,caecum,carcinoma,0,1	HCRTR1	20	1	NM_001525	exon9	c.A1222G	p.I408V	TGCTCCATCTCCA	.	scavenged	Atlas-SNP
TRIM31	11074	hgsc.bcm.edu	37	6	30078330	30078330	+	Silent	SNP	C	C	T	rs2239529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	109	188	0	0.467811	0	C|0.907;T|0.093	0.093	strong	TRIM31,trunk,malignant_melanoma,-2,2	TRIM31	40	2	NM_007028	exon4	c.G639A	p.A213A	TTTCCCCGCTTCC	.	PASS	Atlas-SNP
AGT	183	hgsc.bcm.edu	37	1	230845977	230845977	+	Missense_Mutation	SNP	G	G	A	rs4762	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	24	62	0	0.521739	0	G|0.900;A|0.100	0.100	strong	.	AGT	62	.	NM_000029	exon2	c.C620T	p.T207M	ACCACCGTGGACA	.	PASS	Atlas-SNP
PCNXL3	399909	hgsc.bcm.edu	37	11	65384727	65384727	+	Silent	SNP	C	C	T	rs12790427	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	61	133	0	0.539823	0	C|0.719;T|0.281	0.281	strong	PCNXL3_ENST00000355703,NS,carcinoma,0,1	PCNXL3	140	1	NM_032223	exon3	c.C348T	p.P116P	GGACCCCGGAGTG	.	PASS	Atlas-SNP
TCEB3B	51224	hgsc.bcm.edu	37	18	44561619	44561619	+	Missense_Mutation	SNP	G	G	C	rs61738602	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	52	180	0	0.419355	0	C|0.074;G|0.926;T|0.000	0.074	strong	.	TCEB3B	141	.	NM_016427	exon1	c.C17G	p.T6S	AGCGTAGTGGACC	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105418260	105418260	+	Silent	SNP	T	T	A	rs56330864	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	337	202	274	0	0.599407	0	A|0.617;C|0.006;T|0.377	0.617	strong	.	AHNAK2	719	.	NM_138420	exon7	c.A3528T	p.S1176S	TGGGGCTGACGCC	.	PASS	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	37	8	17503612	17503612	+	Silent	SNP	C	C	G	rs61733704	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	41	68	0	0.539474	0	C|0.956;G|0.044	0.044	strong	.	MTUS1	144	.	NM_001001924	exon15	c.G3636C	p.S1212S	CTCCAGCGACTCT	.	PASS	Atlas-SNP
ASCC3	10973	hgsc.bcm.edu	37	6	101296389	101296389	+	Missense_Mutation	SNP	G	G	A	rs9390698	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	51	154	0	0.361702	0	G|0.688;A|0.312	0.312	strong	ASCC3,NS,carcinoma,0,1	ASCC3	205	1	NM_006828	exon4	c.C436T	p.L146F	CAGTAAGATCATC	.	PASS	Atlas-SNP
MCM7	4176	hgsc.bcm.edu	37	7	99693078	99693078	+	Silent	SNP	G	G	A	rs12267	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	46	96	0	0.46	0	G|0.778;A|0.222	0.222	strong	.	MCM7	136	.	NM_005916	exon12	c.C1611T	p.I537I	ATAGGTGATGTGC	.	PASS	Atlas-SNP
KIAA0408	9729	hgsc.bcm.edu	37	6	127768472	127768472	+	Missense_Mutation	SNP	G	G	A	rs2236026	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	93	182	0	0.62	0	G|0.855;A|0.145	0.145	strong	.	KIAA0408	61	.	NM_014702	exon5	c.C992T	p.S331L	TCTTTCGAAGTTT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	42	84	0	0.56	0	G|0.435;C|0.565	0.565	strong	.	PERP	15	.	NM_022121	exon3	c.C428G	p.P143R	ACAGCAGGGTTGG	.	PASS	Atlas-SNP
OR51A2	401667	hgsc.bcm.edu	37	11	4976447	4976447	+	Missense_Mutation	SNP	C	C	G	rs77497717	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	384	345	543	0	0.898438	0	C|0.897;G|0.103	0.103	strong	.	OR51A2	40	.	NM_001004748	exon1	c.G497C	p.R166T	AAGCTTCTTAAAG	.	PASS	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30882634	30882634	+	Silent	SNP	C	C	T	rs1264302	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	76	124	0	0.608	0	C|0.733;T|0.267	0.267	strong	.	VARS2	60	.	NM_001167734	exon2	c.C111T	p.A37A	TCTCGCCTCTTTT	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2836060	2836060	+	Silent	SNP	G	G	A	rs113318393	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	41	113	0	0.418367	0	G|0.930;A|0.070	0.070	strong	.	ARSD	47	.	NM_001669	exon5	c.C648T	p.A216A	CTGGCCGGCAGCC	.	PASS	Atlas-SNP
PALB2	79728	hgsc.bcm.edu	37	16	23646191	23646191	+	Missense_Mutation	SNP	T	T	C	rs152451	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	40	64	0	0.540541	0	T|0.856;C|0.144	0.144	strong	.	PALB2	108	.	NM_024675	exon4	c.A1676G	p.Q559R	TTCACTTGAATAA	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32497914	32497914	+	Missense_Mutation	SNP	C	C	T	rs76748970	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	376	115	177	0	0.305851	0	C|0.842;T|0.158	0.158	strong	.	HLA-DRB5	31	.	NM_002125	exon1	c.G88A	p.G30R	TGTCCCCAGCCAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	556	553	552	0	0.994604	0	A|0.898;G|0.102	0.102	strong	.	ST6GALNAC1	42	.	NM_018414	exon2	c.T239C	p.V80A	TCTGGCACTGGCT	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	37	2	29940529	29940529	+	Silent	SNP	A	A	T	rs2246745	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	247	264	0	1	0	A|0.355;T|0.645	0.645	strong	ALK,NS,carcinoma,-1,1	ALK	533	1	NM_004304	exon2	c.T702A	p.P234P	AGGAGAAGGCATG	.	PASS	Atlas-SNP
LDHD	197257	hgsc.bcm.edu	37	16	75146357	75146357	+	Missense_Mutation	SNP	T	T	G	rs372986804		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	31	84	0	0.442857	0	.	.	weak	.	LDHD	34	.	NM_153486	exon11	c.A1421C	p.Q474P	AGCAGCTGCCGCT	.	PASS	Atlas-SNP
PLD1	5337	hgsc.bcm.edu	37	3	171404478	171404478	+	Missense_Mutation	SNP	C	C	A	rs2290480	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	97	217	0	0.395918	0	C|0.841;A|0.159	0.159	strong	PLD1,NS,carcinoma,0,2	PLD1	134	2	NM_002662	exon16	c.G1864T	p.A622S	TACCAGCATGAGG	.	PASS	Atlas-SNP
IDO2	169355	hgsc.bcm.edu	37	8	39840234	39840234	+	Missense_Mutation	SNP	A	A	G	rs4736794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	43	91	0	0.338583	0	A|0.845;G|0.155	0.155	strong	.	IDO2	78	.	NM_194294	exon5	c.A418G	p.I140V	CCTCCTATCCTGG	.	PASS	Atlas-SNP
NOTCH2NL	388677	hgsc.bcm.edu	37	1	145273366	145273366	+	Nonsense_Mutation	SNP	C	C	T	rs140871032	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	2315	385	1988	1	0.166307	0.000503018	C|0.964;T|0.036	0.036	strong	NOTCH2NL_ENST00000362074,NS,haematopoietic_neoplasm,0,2	NOTCH2NL	100	2	NM_203458	exon3	c.C220T	p.R74X	GTGTCTCGACCTT	.	PASS	Atlas-SNP
OR51I1	390063	hgsc.bcm.edu	37	11	5461930	5461930	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	3	143	0	0.0189873	0	.	.	none	OR51I1,neck,malignant_melanoma,0,1	OR51I1	66	1	NM_001005288	exon1	c.C815T	p.P272L	ACAACAGGTGGAG	.	scavenged	Atlas-SNP
UGGT2	55757	hgsc.bcm.edu	37	13	96555149	96555149	+	Missense_Mutation	SNP	C	C	T	rs33949518	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	44	103	0	0.494382	0	C|0.858;T|0.142	0.142	strong	.	UGGT2	127	.	NM_020121	exon21	c.G2461A	p.A821T	AAATAGCTGTAGC	.	PASS	Atlas-SNP
IMPDH1	3614	hgsc.bcm.edu	37	7	128038555	128038555	+	Silent	SNP	C	C	G	rs2288550	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	70	144	0	0.496454	0	C|0.868;G|0.132	0.132	strong	.	IMPDH1	38	.	NM_000883	exon10	c.G987C	p.L329L	ACAGAGCAGCTGC	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70172890	70172890	+	Missense_Mutation	SNP	C	C	T	rs142218067	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	290	55	135	1	0.189655	0.00740741	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
CBX2	84733	hgsc.bcm.edu	37	17	77758653	77758653	+	Missense_Mutation	SNP	C	C	G	rs141957173	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	20	70	0	0.392157	0	C|0.996;G|0.004	0.004	strong	.	CBX2	50	.	NM_005189	exon5	c.C1411G	p.P471A	TCCGACCCCGACT	.	PASS	Atlas-SNP
ADH4	127	hgsc.bcm.edu	37	4	100045616	100045616	+	Missense_Mutation	SNP	C	C	T	rs1126673	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	208	202	1	1	0.00495049	C|0.225;T|0.775	0.775	strong	.	ADH4	35	.	NM_000670	exon9	c.G1120A	p.V374I	TTCGGACGCTGTT	.	PASS	Atlas-SNP
ZNF45	7596	hgsc.bcm.edu	37	19	44418693	44418693	+	Missense_Mutation	SNP	T	T	C	rs388706	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	82	161	0	0.503067	0	T|0.488;C|0.512	0.512	strong	.	ZNF45	51	.	NM_003425	exon10	c.A895G	p.T299A	TTCCAGTGTGAAC	.	PASS	Atlas-SNP
CR2	1380	hgsc.bcm.edu	37	1	207648173	207648173	+	Silent	SNP	T	T	C	rs61735651	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	66	99	0	0.492537	0	T|0.917;C|0.083	0.083	strong	.	CR2	164	.	NM_001006658	exon14	c.T2328C	p.I776I	AGTTATTCACTGT	.	PASS	Atlas-SNP
CDHR5	53841	hgsc.bcm.edu	37	11	617537	617537	+	Silent	SNP	C	C	T	rs2740380	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	31	40	0	0.62	0	C|0.534;T|0.466	0.466	strong	.	CDHR5	77	.	NM_021924	exon15	c.G2352A	p.P784P	GCCCTCCGGCCGC	.	PASS	Atlas-SNP
POM121L12	285877	hgsc.bcm.edu	37	7	53103946	53103946	+	Silent	SNP	G	G	C	rs12113170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	23	66	0	0.489362	0	G|0.631;C|0.369	0.369	strong	.	POM121L12	146	.	NM_182595	exon1	c.G582C	p.G194G	CGACGGGCCGTTG	.	PASS	Atlas-SNP
FDFT1	2222	hgsc.bcm.edu	37	8	11667179	11667179	+	Silent	SNP	C	C	T	rs8417	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	38	77	0	0.475	0	C|0.809;T|0.191	0.191	strong	.	FDFT1	25	.	NM_004462	exon3	c.C201T	p.N67N	CAGCAACGCAGTG	.	PASS	Atlas-SNP
HJURP	55355	hgsc.bcm.edu	37	2	234752863	234752863	+	Missense_Mutation	SNP	C	C	T	rs140874442	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	54	84	0	0.490909	0	C|0.998;T|0.002	0.002	strong	.	HJURP	72	.	NM_018410	exon7	c.G562A	p.V188M	CAGGCACGGCAGG	.	PASS	Atlas-SNP
ELOVL2	54898	hgsc.bcm.edu	37	6	11005776	11005776	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	51	72	0	0.504951	0	.	.	none	.	ELOVL2	40	.	NM_017770	exon3	c.G84A	p.G28G	GAACCACCCTCTG	.	PASS	Atlas-SNP
HACE1	57531	hgsc.bcm.edu	37	6	105198267	105198267	+	Silent	SNP	A	A	G	rs7752614	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	61	131	0	0.655914	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
ARMC4	55130	hgsc.bcm.edu	37	10	28250610	28250610	+	Missense_Mutation	SNP	C	C	A	rs80260946		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	23	188	0	0.118557	0	.	.	weak	ARMC4,NS,malignant_melanoma,0,3	ARMC4	177	3	NM_018076	exon10	c.G1273T	p.D425Y	AGCTATCGCTAAC	.	scavenged	Atlas-SNP
NPAS1	4861	hgsc.bcm.edu	37	19	47543774	47543774	+	Silent	SNP	G	G	A	rs3745615	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	234	109	240	0	0.465812	0	G|0.412;A|0.588	0.588	strong	NPAS1,rectum,carcinoma,0,1	NPAS1	32	1	NM_002517	exon8	c.G1035A	p.Q345Q	CGGACAGGACGCC	.	PASS	Atlas-SNP
TRIM5	85363	hgsc.bcm.edu	37	11	5701074	5701074	+	Missense_Mutation	SNP	C	C	A	rs11601507	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	76	179	0	0.487179	0	C|0.933;A|0.067	0.067	strong	TRIM5_ENST00000380034,rectum,NS,+2,2	TRIM5	111	2	NM_033093	exon2	c.G334T	p.V112F	AAATGACCTTCCC	.	PASS	Atlas-SNP
CST2	1470	hgsc.bcm.edu	37	20	23805955	23805955	+	Silent	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	6	142	2	0.04	0.0140845	.	.	none	CST2,colon,carcinoma,-2,1	CST2	39	1	NM_001322	exon2	c.G234T	p.V78V	CCCGCCCACGATC	.	scavenged	Atlas-SNP
VWA2	340706	hgsc.bcm.edu	37	10	116046066	116046066	+	Missense_Mutation	SNP	C	C	T	rs141860499	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	18	75	0	0.580645	0	C|0.993;T|0.007	0.007	strong	.	VWA2	64	.	NM_001272046	exon11	c.C1366T	p.H456Y	GAGTCACACTCCG	.	PASS	Atlas-SNP
PIP5KL1	138429	hgsc.bcm.edu	37	9	130690412	130690412	+	Silent	SNP	G	G	C	rs10760515	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	21	63	0	0.42	0	G|0.237;C|0.763	0.763	strong	.	PIP5KL1	38	.	NM_001135219	exon4	c.C366G	p.A122A	GCCCAGGGCAGCC	.	PASS	Atlas-SNP
UBB	7314	hgsc.bcm.edu	37	17	16285611	16285611	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	6	211	1	0.0262009	0.00473934	.	.	none	UBB,rectum,carcinoma,+2,2	UBB	30	2	NM_018955	exon2	c.C390T	p.R130R	TGGCCGCACTCTT	.	scavenged	Atlas-SNP
CCDC77	84318	hgsc.bcm.edu	37	12	547683	547683	+	Missense_Mutation	SNP	T	T	C	rs735295	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	80	168	0	0.465116	0	C|0.291;N|0.001	0.291	strong	.	CCDC77	35	.	NM_032358	exon10	c.T1004C	p.M335T	CCGTTATGCATGA	.	PASS	Atlas-SNP
POU5F1	5460	hgsc.bcm.edu	37	6	31138377	31138377	+	Silent	SNP	C	C	T	rs2077010	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	88	89	0	0.977778	0	C|0.592;T|0.408	0.408	strong	.	POU5F1	25	.	NM_002701	exon1	c.G21A	p.S7S	GAAATCCGAAGCC	.	PASS	Atlas-SNP
CNP	1267	hgsc.bcm.edu	37	17	40125864	40125864	+	Silent	SNP	G	G	A	rs2070106	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	49	51	0	1	0	G|0.731;A|0.269	0.269	strong	.	CNP	58	.	NM_033133	exon4	c.G1188A	p.G396G	CACGGGGTACTAC	.	PASS	Atlas-SNP
ZDBF2	57683	hgsc.bcm.edu	37	2	207172627	207172627	+	Silent	SNP	A	A	G	rs7582864	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	61	128	0	0.480315	0	A|0.540;G|0.460	0.460	strong	ZDBF2_ENST00000374423,NS,carcinoma,0,2	ZDBF2	531	2	NM_020923	exon5	c.A3375G	p.Q1125Q	TGTCCAATCTGTG	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204945	56204945	+	Missense_Mutation	SNP	C	C	G	rs3809972	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	60	237	0	0.387097	0	C|0.531;G|0.469	0.469	strong	.	ALPK2	487	.	NM_052947	exon5	c.G2474C	p.R825T	ACTGGTCTCCCAA	.	PASS	Atlas-SNP
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45971162	45971162	+	Silent	SNP	C	C	T	rs76415521		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	36	173	0	0.339623	0	.	.	weak	KRTAP10-2,colon,carcinoma,0,1	KRTAP10-2	21	1	NM_198693	exon1	c.G180A	p.A60A	ACAGGCCGCCTGG	.	scavenged	Atlas-SNP
FERMT1	55612	hgsc.bcm.edu	37	20	6100088	6100088	+	Silent	SNP	A	A	G	rs10373	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	108	255	0	0.507042	0	A|0.466;G|0.534	0.534	strong	.	FERMT1	106	.	NM_017671	exon2	c.T114C	p.H38H	TCCAACATGAAGG	.	PASS	Atlas-SNP
RAB11FIP5	26056	hgsc.bcm.edu	37	2	73315683	73315683	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	3	80	0	0.0267857	0	.	.	none	RAB11FIP5,NS,carcinoma,+1,1	RAB11FIP5	66	1	NM_015470	exon3	c.C1063A	p.R355S	AGCTGCGGTGCCG	.	scavenged	Atlas-SNP
ANXA6	309	hgsc.bcm.edu	37	5	150518988	150518988	+	Silent	SNP	G	G	A	rs2228458	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	52	161	0	0.305882	0	G|0.752;N|0.000	.	strong	.	ANXA6	102	.	NM_001155	exon4	c.C130T	p.L44L	TGTCCAGTATGGC	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63918307	63918307	+	Silent	SNP	G	G	C	rs1140422	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	49	73	0	0.510417	0	G|0.899;C|0.101	0.101	strong	.	HERC1	624	.	NM_003922	exon71	c.C13152G	p.P4384P	ATACTGGGGGGGC	.	PASS	Atlas-SNP
TBC1D8	11138	hgsc.bcm.edu	37	2	101624471	101624471	+	Missense_Mutation	SNP	T	T	C	rs746924	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	105	162	0	0.546875	0	C|0.538;N|0.000	0.538	strong	.	TBC1D8	169	.	NM_001102426	exon20	c.A3235G	p.R1079G	AGTCCCTTTCTGC	.	PASS	Atlas-SNP
TSC2	7249	hgsc.bcm.edu	37	16	2114407	2114407	+	Silent	SNP	C	C	T	rs34012042	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	71	123	0	0.427711	0	C|0.949;T|0.051	0.051	strong	.	TSC2	364	.	NM_001114382	exon15	c.C1578T	p.S526S	CAACAGCCTGCTG	.	PASS	Atlas-SNP
LTN1	26046	hgsc.bcm.edu	37	21	30332911	30332911	+	Missense_Mutation	SNP	C	C	T	rs34635840	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	66	172	0	0.390533	0	C|0.926;T|0.074	0.074	strong	.	LTN1	141	.	NM_015565	exon12	c.G2419A	p.V807I	AAGATACCCTGGA	.	PASS	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	37	1	204589066	204589066	+	Missense_Mutation	SNP	C	C	T	rs36012907	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	36	81	0	0.48	0	C|0.942;T|0.058	0.058	strong	.	LRRN2	81	.	NM_006338	exon3	c.G55A	p.A19T	GCACAGCGGCAGT	.	PASS	Atlas-SNP
CTCFL	140690	hgsc.bcm.edu	37	20	56090807	56090807	+	Silent	SNP	A	A	G	rs6025601	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	43	102	0	0.488636	0	A|0.717;G|0.283	0.283	strong	CTCFL,bladder,carcinoma,-2,2	CTCFL	97	2	NM_001269044	exon5	c.T1143C	p.D381D	GTAGGTATCTCTG	.	PASS	Atlas-SNP
OR51A2	401667	hgsc.bcm.edu	37	11	4976077	4976077	+	Missense_Mutation	SNP	T	T	G	rs2570573	bycluster;byfrequency;bysubmitter;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	33	500	1	0.942857	0.002	T|0.952;G|0.048	0.048	strong	OR51A2,NS,carcinoma,-2,1	OR51A2	40	1	NM_001004748	exon1	c.A867C	p.K289N	AATTGGTTTCATC	.	scavenged	Atlas-SNP
ZNF646	9726	hgsc.bcm.edu	37	16	31088347	31088347	+	Silent	SNP	G	G	A	rs749671	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	57	94	0	0.612903	0	G|0.646;A|0.354	0.354	strong	.	ZNF646	133	.	NM_014699	exon2	c.G702A	p.E234E	TGCTGAGGAGGAG	.	PASS	Atlas-SNP
DES	1674	hgsc.bcm.edu	37	2	220286142	220286142	+	Silent	SNP	G	G	A	rs1058284	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	132	148	0	0.992481	0	G|0.640;A|0.360	0.360	strong	DES,right_upper_lobe,carcinoma,+1,1	DES	53	1	NM_001927	exon6	c.G1104A	p.A368A	CATTGCGCGCCTG	.	PASS	Atlas-SNP
LY6G6F	259215	hgsc.bcm.edu	37	6	31677953	31677953	+	Missense_Mutation	SNP	G	G	A	rs61740977	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	53	117	1	0.473214	0.00854701	G|0.994;A|0.006	0.006	strong	LY6G6F,colon,carcinoma,+1,1	LY6G6F	23	1	NM_001003693	exon4	c.G797A	p.G266D	CTCCAGGCAGAGG	.	scavenged	Atlas-SNP
MOB3A	126308	hgsc.bcm.edu	37	19	2078176	2078176	+	Silent	SNP	C	C	T	rs35452475	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	125	253	0	0.464684	0	C|0.956;T|0.044	0.044	strong	MOBKL2A,caecum,carcinoma,-1,1	.	.	1	NM_130807	exon3	c.G384A	p.A128A	GATCTGCGCCTCG	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52888210	52888210	+	Silent	SNP	T	T	C	rs56151179	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	41	81	0	0.532468	0	T|0.633;C|0.367	0.367	strong	.	ZNF880	45	.	NM_001145434	exon4	c.T1377C	p.T459T	TCATACTGGAGAG	.	PASS	Atlas-SNP
ZKSCAN3	80317	hgsc.bcm.edu	37	6	28331128	28331128	+	Missense_Mutation	SNP	A	A	C	rs373509101	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	48	89	0	0.396694	0	.	.	alt	ZKSCAN3,NS,other,-1,1	ZKSCAN3	50	1	NM_024493	exon4	c.A599C	p.K200T	AAGATAAAGTGGT	.	PASS	Atlas-SNP
WDR72	256764	hgsc.bcm.edu	37	15	53994493	53994493	+	Silent	SNP	A	A	G	rs6416452	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	64	118	0	0.496124	0	A|0.403;G|0.597	0.597	strong	.	WDR72	177	.	NM_182758	exon12	c.T1407C	p.Y469Y	ATGTGGATAGAGT	.	PASS	Atlas-SNP
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45971299	45971299	+	Missense_Mutation	SNP	T	T	C	rs233240	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	95	189	0	0.519126	0	T|0.767;C|0.233	0.233	strong	KRTAP10-2,bladder,carcinoma,0,3	KRTAP10-2	21	3	NM_198693	exon1	c.A43G	p.N15D	AGGAGTTGGTGCA	.	PASS	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115370254	115370254	+	Silent	SNP	A	A	G	rs12243176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	108	137	0	1	0	A|0.547;G|0.453	0.453	strong	.	NRAP	208	.	NM_001261463	exon31	c.T3567C	p.I1189I	CCCTTCAATCTCT	.	PASS	Atlas-SNP
TULP4	56995	hgsc.bcm.edu	37	6	158924595	158924595	+	Silent	SNP	A	A	G	rs3749853	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	61	124	0	0.512605	0	A|0.827;G|0.173	0.173	strong	.	TULP4	137	.	NM_020245	exon13	c.A3900G	p.Q1300Q	CCTCCAAAGCCAC	.	PASS	Atlas-SNP
TTLL5	23093	hgsc.bcm.edu	37	14	76330181	76330181	+	Silent	SNP	G	G	A	rs3742764	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	42	121	0	0.306569	0	G|0.824;A|0.176	0.176	strong	.	TTLL5	102	.	NM_015072	exon29	c.G3498A	p.L1166L	GCTCCTGGACCAG	.	PASS	Atlas-SNP
PPP5C	5536	hgsc.bcm.edu	37	19	46878989	46878989	+	Silent	SNP	G	G	A	rs61747094	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	86	187	0	0.452632	0	G|0.628;A|0.372	0.372	strong	.	PPP5C	44	.	NM_006247	exon3	c.G492A	p.S164S	GGACTCGCTGGAC	.	PASS	Atlas-SNP
TGM5	9333	hgsc.bcm.edu	37	15	43527819	43527819	+	Missense_Mutation	SNP	T	T	C	rs35985214	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	59	186	0	0.36875	0	T|0.988;C|0.012	0.012	strong	TGM5,rectum,carcinoma,-1,1	TGM5	88	1	NM_201631	exon10	c.A1562G	p.Q521R	ATATCCTGGCCCA	.	PASS	Atlas-SNP
GDA	9615	hgsc.bcm.edu	37	9	74865703	74865703	+	Missense_Mutation	SNP	C	C	T	rs41310055	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	42	117	0	0.451613	0	C|0.979;T|0.021	0.021	strong	.	GDA	113	.	NM_001242505	exon15	c.C1399T	p.P467S	CCCCATCCTCCAC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	117	245	0	0.485477	0	G|0.749;A|0.251	0.251	strong	.	MUC16	4315	.	NM_024690	exon3	c.C10010T	p.S3337L	GTCTTTGAAACCA	.	PASS	Atlas-SNP
MTERFD3	80298	hgsc.bcm.edu	37	12	107372277	107372277	+	Silent	SNP	C	C	T	rs1043156	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	174	165	1	1	0.00606061	C|0.884;T|0.116	0.116	strong	.	MTERFD3	32	.	NM_001033050	exon3	c.G216A	p.E72E	TTCATCCTCTAAA	.	PASS	Atlas-SNP
LRRCC1	85444	hgsc.bcm.edu	37	8	86021932	86021932	+	Missense_Mutation	SNP	T	T	A	rs16913589	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	89	136	0	0.549383	0	T|0.969;A|0.031	0.031	strong	.	LRRCC1	212	.	NM_033402	exon2	c.T207A	p.H69Q	ACAACATCTAGAT	.	PASS	Atlas-SNP
KHK	3795	hgsc.bcm.edu	37	2	27315252	27315252	+	Missense_Mutation	SNP	G	G	A	rs2304681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	44	52	0	0.628571	0	G|0.649;A|0.351	0.351	strong	KHK_ENST00000260598,colon,carcinoma,0,2	KHK	60	2	NM_006488	exon2	c.G145A	p.V49I	TGCACCGTTCTCT	.	PASS	Atlas-SNP
C9orf40	55071	hgsc.bcm.edu	37	9	77567335	77567335	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	24	89	0	0.4	0	.	.	none	.	C9orf40	5	.	NM_017998	exon1	c.G193A	p.E65K	AGGGCTCTGCCAT	.	PASS	Atlas-SNP
C16orf89	146556	hgsc.bcm.edu	37	16	5097947	5097947	+	Missense_Mutation	SNP	A	A	G	rs1127920	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	50	78	0	0.50505	0	T|0.086;G|0.260	0.260	strong	.	C16orf89	64	.	NM_001098514	exon7	c.T887C	p.L296S	TTAGATAATTCTT	.	PASS	Atlas-SNP
BCL2	596	hgsc.bcm.edu	37	18	60985879	60985879	+	Silent	SNP	T	T	C	rs1801018	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	17	87	0	0.288136	0	T|0.720;C|0.280	0.280	strong	BCL2_ENST00000444484,brain,glioma,0,15	BCL2	272	15	NM_000633	exon2	c.A21G	p.T7T	GTACCCTGTTCTC	.	PASS	Atlas-SNP
OR8D4	338662	hgsc.bcm.edu	37	11	123777412	123777412	+	Missense_Mutation	SNP	A	A	G	rs17127950	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	72	155	0	0.444444	0	A|0.800;G|0.200	0.200	strong	.	OR8D4	62	.	NM_001005197	exon1	c.A274G	p.I92V	AGATCCATCTCCT	.	PASS	Atlas-SNP
AP1M1	8907	hgsc.bcm.edu	37	19	16339715	16339715	+	Silent	SNP	C	C	T	rs3752797	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	109	120	0	1	0	C|0.486;T|0.514	0.514	strong	.	AP1M1	48	.	NM_001130524	exon10	c.C1059T	p.I353I	CGAGATCGTGTGG	.	PASS	Atlas-SNP
PHC2	1912	hgsc.bcm.edu	37	1	33790496	33790496	+	Silent	SNP	G	G	A	rs11554674	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	34	107	0	0.382022	0	G|0.830;A|0.170	0.170	strong	.	PHC2	78	.	NM_198040	exon14	c.C2547T	p.Y849Y	GCGGGCGTAGATC	.	PASS	Atlas-SNP
CFHR4	10877	hgsc.bcm.edu	37	1	196876458	196876458	+	Missense_Mutation	SNP	A	A	G	rs7417769	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	121	185	0	0.570755	0	A|0.364;G|0.636	0.636	strong	.	CFHR4	141	.	NM_001201550	exon5	c.A629G	p.N210S	CAGAAAACTGTGG	.	PASS	Atlas-SNP
MYO1G	64005	hgsc.bcm.edu	37	7	45005795	45005795	+	Silent	SNP	G	G	A	rs2269969	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	35	62	0	0.507246	0	G|0.848;A|0.152	0.152	strong	.	MYO1G	86	.	NM_033054	exon16	c.C2034T	p.H678H	CAGCCCGTGCTGC	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42149506	42149506	+	Missense_Mutation	SNP	G	G	C	rs12442525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	38	70	0	0.535211	0	G|0.462;C|0.538	0.538	strong	.	SPTBN5	171	.	NM_016642	exon51	c.C8446G	p.Q2816E	AGGCCTGGGCCTG	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	37	6	38729511	38729511	+	Missense_Mutation	SNP	T	T	C	rs61748600	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	83	164	0	0.399038	0	T|0.879;C|0.121	0.121	strong	.	DNAH8	1239	.	NM_001206927	exon11	c.T1549C	p.Y517H	AAAGCATATATTA	.	PASS	Atlas-SNP
TRIM77	390231	hgsc.bcm.edu	37	11	89443808	89443808	+	Silent	SNP	A	A	C	rs11018745	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	30	64	0	0.416667	0	A|0.705;C|0.295	0.295	strong	.	.	.	.	NM_001146162	exon1	c.A342C	p.L114L	TTTTCTATGCTCT	.	PASS	Atlas-SNP
BNIP2	663	hgsc.bcm.edu	37	15	59963488	59963488	+	Silent	SNP	A	A	G	rs1135148	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	16	27	0	0.363636	0	A|0.703;G|0.297	0.297	strong	.	BNIP2	27	.	NM_004330	exon7	c.T964C	p.L322L	CTACTAATAGCTC	.	PASS	Atlas-SNP
OBP2A	29991	hgsc.bcm.edu	37	9	138440562	138440562	+	Missense_Mutation	SNP	C	C	T	rs3178137	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	76	179	0	0.45509	0	C|0.781;T|0.219	0.219	strong	.	OBP2A	21	.	NM_014582	exon5	c.C397T	p.P133S	AGGAATCCTAATA	.	PASS	Atlas-SNP
SMC5	23137	hgsc.bcm.edu	37	9	72897440	72897440	+	Missense_Mutation	SNP	T	T	C	rs1180117	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	134	260	0	0.485507	0	T|0.778;C|0.222	0.222	strong	.	SMC5	96	.	NM_015110	exon7	c.T922C	p.C308R	GTAACATGTCGAA	.	PASS	Atlas-SNP
SERPINB5	5268	hgsc.bcm.edu	37	18	61170782	61170782	+	Missense_Mutation	SNP	A	A	G	rs1455555	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	44	133	0	0.338462	0	A|0.611;G|0.389	0.389	strong	.	SERPINB5	35	.	NM_002639	exon7	c.A955G	p.I319V	AATGTTATCCACA	.	PASS	Atlas-SNP
CAMK2B	816	hgsc.bcm.edu	37	7	44259706	44259706	+	Silent	SNP	G	G	A	rs1065359	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	13	47	0	0.481481	0	G|0.654;A|0.346	0.346	strong	.	CAMK2B	56	.	NM_001220	exon23	c.C1956T	p.N652N	GTGCACGTTCTGC	.	PASS	Atlas-SNP
BTN3A2	11118	hgsc.bcm.edu	37	6	26370657	26370657	+	Missense_Mutation	SNP	A	A	G	rs9358936	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268	125	201	0	0.466418	0	A|0.926;G|0.074	0.074	strong	.	BTN3A2	44	.	NM_001197246	exon3	c.A541G	p.N181D	TGGAGCAACGCCA	.	PASS	Atlas-SNP
C4orf17	84103	hgsc.bcm.edu	37	4	100443720	100443720	+	Missense_Mutation	SNP	G	G	A	rs13143848	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	107	93	0	1	0	G|0.699;A|0.301	0.301	strong	C4orf17,NS,carcinoma,0,1	C4orf17	42	1	NM_032149	exon3	c.G191A	p.G64E	TGTGGGGAGTTGG	.	PASS	Atlas-SNP
MEIG1	644890	hgsc.bcm.edu	37	10	15008493	15008493	+	Missense_Mutation	SNP	A	A	C	rs4750568	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	222	204	0	0.995516	0	A|0.380;C|0.620	0.620	strong	.	MEIG1	11	.	NM_001080836	exon2	c.A26C	p.K9T	AACCAAAATCAGT	.	PASS	Atlas-SNP
LIPC	3990	hgsc.bcm.edu	37	15	58860963	58860963	+	Silent	SNP	C	C	A	rs6074	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	40	73	0	0.555556	0	C|0.856;A|0.144	0.144	strong	.	LIPC	56	.	NM_000236	exon9	c.C1437A	p.T479T	CCCAACCCAGGAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506987	195506987	+	Missense_Mutation	SNP	T	T	C	rs200157887	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	25	62	4	0.147059	0.0645161	T|0.816;C|0.185	0.185	strong	MUC4_ENST00000463781,extremity,malignant_melanoma,0,2	MUC4	1505	2	NM_018406	exon2	c.A11464G	p.T3822A	GGGTGGTGTCACC	.	scavenged	Atlas-SNP
GPR87	53836	hgsc.bcm.edu	37	3	151011969	151011969	+	Silent	SNP	G	G	A	rs1048408	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	163	176	0	1	0	G|0.533;A|0.467	0.467	strong	.	GPR87	52	.	NM_023915	exon3	c.C1065T	p.Y355Y	ATCAGTGTAATCA	.	PASS	Atlas-SNP
ANO9	338440	hgsc.bcm.edu	37	11	433867	433867	+	Missense_Mutation	SNP	G	G	A	rs12575508	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	57	92	0	0.5	0	G|0.785;A|0.215	0.215	strong	.	ANO9	61	.	NM_001012302	exon3	c.C152T	p.A51V	TGCCGCGCCTGCC	.	PASS	Atlas-SNP
CHRNA3	1136	hgsc.bcm.edu	37	15	78893787	78893787	+	Silent	SNP	G	G	A	rs56403513	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	115	239	0	0.473251	0	G|0.996;A|0.004	0.004	strong	.	CHRNA3	56	.	NM_000743	exon5	c.C1197T	p.D399D	CATCCCGTCCTGG	.	PASS	Atlas-SNP
FHDC1	85462	hgsc.bcm.edu	37	4	153886104	153886104	+	Silent	SNP	G	G	A	rs2018007	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	401	183	359	0	0.456359	0	G|0.973;A|0.027	0.027	strong	.	FHDC1	102	.	NM_033393	exon8	c.G1077A	p.L359L	AAAATTGCATCAT	.	PASS	Atlas-SNP
OR2C3	81472	hgsc.bcm.edu	37	1	247694949	247694949	+	Missense_Mutation	SNP	G	G	C	rs6702693	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	75	135	0	0.436047	0	G|0.854;C|0.146	0.146	strong	.	OR2C3	92	.	NM_198074	exon2	c.C865G	p.L289V	AAATAAGTGGGTT	.	PASS	Atlas-SNP
RNF43	54894	hgsc.bcm.edu	37	17	56436109	56436109	+	Missense_Mutation	SNP	C	C	T	rs34523089	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	30	53	0	0.526316	0	C|0.912;T|0.088	0.088	strong	RNF43,NS,carcinoma,0,1	RNF43	157	1	NM_017763	exon9	c.G1028A	p.R343H	TGCTGGCGAATGA	.	PASS	Atlas-SNP
SCN3A	6328	hgsc.bcm.edu	37	2	165987772	165987772	+	Silent	SNP	T	T	G	rs62174900	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	82	187	0	0.465909	0	T|0.828;G|0.172	0.172	strong	.	SCN3A	544	.	NM_006922	exon16	c.A2547C	p.V849V	TCGCAGTACAGAC	.	PASS	Atlas-SNP
DEFA3	1668	hgsc.bcm.edu	37	8	6873603	6873603	+	Missense_Mutation	SNP	T	T	G	rs2230231	bycluster;byfrequency;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	416	40	646	23	0.0961538	0.0356037	T|0.167;G|0.833	0.833	strong	DEFA3,NS,carcinoma,0,1	DEFA3	7	1	NM_005217	exon3	c.A194C	p.D65A	TAGCAGTCCATGT	.	scavenged	Atlas-SNP
USP32	84669	hgsc.bcm.edu	37	17	58288421	58288421	+	Missense_Mutation	SNP	C	C	T	rs146577219	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	695	153	621	1	0.220144	0.00161031	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
HLA-C	3107	hgsc.bcm.edu	37	6	31239506	31239506	+	Silent	SNP	C	C	G	rs1050414	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	117	242	0	0.52	0	C|0.891;G|0.109	0.109	strong	.	HLA-C	92	.	NM_002117	exon2	c.G213C	p.P71P	CGCCCGCGGCTCC	.	PASS	Atlas-SNP
KLHL14	57565	hgsc.bcm.edu	37	18	30349691	30349691	+	Silent	SNP	C	C	T	rs17851892	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	83	152	0	0.58042	0	C|0.695;T|0.305	0.305	strong	.	KLHL14	92	.	NM_020805	exon2	c.G864A	p.P288P	GCAGACCGGGTCG	.	PASS	Atlas-SNP
PARP15	165631	hgsc.bcm.edu	37	3	122354792	122354792	+	Missense_Mutation	SNP	G	G	A	rs12489170	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	63	121	0	0.492188	0	G|0.823;A|0.177	0.177	strong	.	PARP15	115	.	NM_001113523	exon12	c.G1882A	p.G628R	ACAAAGGGACGTG	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	37	6	26468637	26468637	+	Missense_Mutation	SNP	G	G	A	rs142664900	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	515	263	347	1	0.51068	0.00288184	G|0.999;A|0.001	0.001	strong	.	BTN2A1	118	.	NM_007049	exon8	c.G1444A	p.V482M	TTTTCCGTGCCTG	.	PASS	Atlas-SNP
HCN4	10021	hgsc.bcm.edu	37	15	73660505	73660505	+	Missense_Mutation	SNP	C	C	T	rs143090627	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	20	50	0	0.512821	0	C|0.957;T|0.043	0.043	strong	.	HCN4	150	.	NM_005477	exon1	c.G107A	p.G36E	CCGGCCCCCTCCT	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60927349	60927349	+	Silent	SNP	C	C	T	rs483876	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	49	49	0	0.98	0	C|0.206;T|0.794	0.794	strong	LAMA5,NS,carcinoma,0,2	LAMA5	268	2	NM_005560	exon4	c.G636A	p.A212A	GATGGCCGCGTCG	.	PASS	Atlas-SNP
CTAGE5	4253	hgsc.bcm.edu	37	14	39818028	39818028	+	Missense_Mutation	SNP	A	A	G	rs1140952	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	255	143	216	0	0.560784	0	A|0.632;G|0.368	0.368	strong	CTAGE5,rectum,carcinoma,0,1	CTAGE5	75	1	NM_001247989	exon23	c.A2110G	p.I704V	GCTCCAATCAGAG	.	PASS	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49208267	49208267	+	Missense_Mutation	SNP	G	G	A	rs75940285	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	441	71	376	0	0.160998	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
KRT6C	286887	hgsc.bcm.edu	37	12	52867190	52867190	+	Missense_Mutation	SNP	C	C	T	rs61914499	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	377	76	459	0	0.201592	0	C|0.500;T|0.500	0.500	weak	KRT6C,brain,glioma,0,1	KRT6C	55	1	NM_173086	exon1	c.G332A	p.G111D	CCCAGACCAAAGC	.	scavenged	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057417	46057417	+	Missense_Mutation	SNP	A	A	C	rs114653592	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	74	167	0	0.510345	0	A|0.757;C|0.243	0.243	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.A83C	p.E28A	GCTGCGAGCCCTG	.	PASS	Atlas-SNP
TTC24	164118	hgsc.bcm.edu	37	1	156551848	156551848	+	Missense_Mutation	SNP	A	A	G	rs6682716	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	129	99	0	1	0	A|0.624;G|0.376	0.376	strong	TTC24,NS,carcinoma,0,1	TTC24	46	1	NM_001105669	exon2	c.A692G	p.E231G	GCACTGAGAGGCG	.	PASS	Atlas-SNP
MTFR1	9650	hgsc.bcm.edu	37	8	66620359	66620359	+	Silent	SNP	G	G	A	rs13274205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	20	22	0	0.555556	0	G|0.693;A|0.307	0.307	strong	.	MTFR1	26	.	NM_001145839	exon7	c.G1046A	p.X349X	GGAGGTGATACAG	.	PASS	Atlas-SNP
VNN2	8875	hgsc.bcm.edu	37	6	133077063	133077063	+	Silent	SNP	T	T	C	rs1883613	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	39	162	0	0.382353	0	T|0.682;C|0.318	0.318	strong	.	VNN2	83	.	NM_004665	exon3	c.A456G	p.T152T	AGGACATGTGGAG	.	PASS	Atlas-SNP
PRIM1	5557	hgsc.bcm.edu	37	12	57146069	57146069	+	Missense_Mutation	SNP	T	T	G	rs2277339	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	28	39	0	0.538462	0	T|0.845;G|0.155	0.155	strong	.	PRIM1	22	.	NM_000946	exon1	c.A14C	p.D5A	GTGGGGTCAAACG	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169521849	169521849	+	Silent	SNP	T	T	C	rs6035	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	127	224	1	0.51004	0.00446429	T|0.917;C|0.083	0.083	strong	.	F5	301	.	NM_000130	exon8	c.A1242G	p.K414K	ATCTTCTTTCATA	.	PASS	Atlas-SNP
NEUROD4	58158	hgsc.bcm.edu	37	12	55420785	55420785	+	Missense_Mutation	SNP	G	G	A	rs151143558	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	30	51	0	0.535714	0	G|0.997;A|0.003	0.003	strong	.	NEUROD4	87	.	NM_021191	exon2	c.G562A	p.D188N	CACGAGGATAAAT	.	PASS	Atlas-SNP
MAPK8IP3	23162	hgsc.bcm.edu	37	16	1814391	1814391	+	Silent	SNP	T	T	C	rs2294618	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	27	94	0	0.397059	0	T|0.839;C|0.161	0.161	strong	.	MAPK8IP3	164	.	NM_015133	exon19	c.T2208C	p.D736D	CCGCGATCCCCTG	.	PASS	Atlas-SNP
CARD14	79092	hgsc.bcm.edu	37	17	78157995	78157995	+	Silent	SNP	G	G	A	rs4889990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	37	86	0	0.513889	0	G|0.641;A|0.359	0.359	strong	.	CARD14	98	.	NM_024110	exon4	c.G633A	p.E211E	GCAGGAGAAGGAG	.	PASS	Atlas-SNP
PRG2	5553	hgsc.bcm.edu	37	11	57155288	57155288	+	Silent	SNP	T	T	C	rs630396	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	149	147	1	1	0.00680272	C|0.935;T|0.065	0.935	strong	PRG2_ENST00000311862,colon,carcinoma,-1,1	PRG2	65	1	NM_002728	exon5	c.A549G	p.A183A	CCAGTATGCAAAG	.	PASS	Atlas-SNP
GNB1L	54584	hgsc.bcm.edu	37	22	19808769	19808769	+	Missense_Mutation	SNP	C	C	T	rs5748449	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	37	86	0	0.544118	0	C|0.860;T|0.140	0.140	strong	.	GNB1L	34	.	NM_053004	exon3	c.G110A	p.R37H	AGCGGGCGCCCCT	.	PASS	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30888161	30888161	+	Missense_Mutation	SNP	T	T	C	rs2249464	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	74	97	0	0.513889	0	T|0.471;C|0.529	0.529	strong	.	VARS2	60	.	NM_001167734	exon14	c.T1435C	p.W479R	AGTGAATGGGGCC	.	PASS	Atlas-SNP
ALPP	250	hgsc.bcm.edu	37	2	233244930	233244930	+	Missense_Mutation	SNP	G	G	C	rs1048988	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	449	448	418	0	0.997773	0	G|0.823;C|0.177	0.177	strong	.	ALPP	53	.	NM_001632	exon6	c.G692C	p.R231P	TGTTTCGCATGGG	.	PASS	Atlas-SNP
MTTP	4547	hgsc.bcm.edu	37	4	100504566	100504566	+	Missense_Mutation	SNP	G	G	C	rs61733139	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	127	264	0	0.460145	0	G|0.952;C|0.048	0.048	strong	.	MTTP	127	.	NM_000253	exon4	c.G285C	p.Q95H	TCAGCAGAGAGGA	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501695	501695	+	Missense_Mutation	SNP	C	C	T	rs77685069	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	23	164	0	0.106977	0	C|0.500;T|0.500	0.500	weak	.	MADCAM1	29	.	NM_130760	exon4	c.C694T	p.P232S	CCGGAGCCTCCCG	.	PASS	Atlas-SNP
ZNF526	116115	hgsc.bcm.edu	37	19	42729121	42729121	+	Missense_Mutation	SNP	C	C	T	rs150807158	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	72	149	0	0.517986	0	C|0.991;T|0.009	0.009	strong	.	ZNF526	51	.	NM_133444	exon3	c.C566T	p.P189L	CTCCCCCATCCGA	.	PASS	Atlas-SNP
ZNF33B	7582	hgsc.bcm.edu	37	10	43089965	43089965	+	Missense_Mutation	SNP	G	G	A	rs210280	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	153	146	0	1	0	G|0.236;A|0.764	0.764	strong	.	ZNF33B	78	.	NM_006955	exon5	c.C433T	p.R145C	TTCCACGTGAGTC	.	PASS	Atlas-SNP
PRKAR2B	5577	hgsc.bcm.edu	37	7	106685448	106685448	+	Silent	SNP	G	G	T	rs75385144	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	22	43	0	0.44898	0	G|0.707;T|0.293	0.293	strong	.	PRKAR2B	34	.	NM_002736	exon1	c.G96T	p.A32A	GTTCGCGCTGCAG	.	PASS	Atlas-SNP
HMMR	3161	hgsc.bcm.edu	37	5	162901156	162901156	+	Missense_Mutation	SNP	G	G	A	rs2303078	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	304	106	271	0	0.348684	0	G|0.961;A|0.039	0.039	strong	.	HMMR	64	.	NM_001142556	exon10	c.G998A	p.R333H	AGGAACGTGAAAA	.	PASS	Atlas-SNP
CFHR5	81494	hgsc.bcm.edu	37	1	196953220	196953220	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	11	87	0	0.115789	0	.	.	none	CFHR5_ENST00000367414,NS,malignant_melanoma,0,6	CFHR5	150	6	NM_030787	exon3	c.C383T	p.S128L	ACATTTCGTGTGT	.	PASS	Atlas-SNP
ZBTB2	57621	hgsc.bcm.edu	37	6	151686905	151686905	+	Silent	SNP	C	C	T	rs11155787	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	281	279	234	0	0.992883	0	C|0.495;T|0.505	0.505	strong	.	ZBTB2	30	.	NM_020861	exon3	c.G1296A	p.E432E	CCCTTCCTCAAAT	.	PASS	Atlas-SNP
PCDHGA8	9708	hgsc.bcm.edu	37	5	140772427	140772427	+	Missense_Mutation	SNP	T	T	G	rs726684	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	19	71	0	0.267606	0	T|0.847;G|0.153	0.153	strong	.	PCDHGA8	146	.	NM_014004	exon1	c.T47G	p.L16R	TCCTGCTGTGCGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	38	63	0	0.513514	0	G|0.742;A|0.258	0.258	strong	.	NAT2	34	.	NM_000015	exon2	c.G590A	p.R197Q	AACCTCGAACAAT	.	PASS	Atlas-SNP
GLP1R	2740	hgsc.bcm.edu	37	6	39048491	39048491	+	Silent	SNP	A	A	C	rs1126476	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	284	284	236	2	1	0.00847458	A|0.489;C|0.511	0.511	strong	.	GLP1R	64	.	NM_002062	exon12	c.A1200C	p.I400I	GGCCATATTATAC	.	PASS	Atlas-SNP
MDH1B	130752	hgsc.bcm.edu	37	2	207603234	207603234	+	Missense_Mutation	SNP	T	T	G	rs2287631	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	59	171	0	0.375796	0	T|0.683;G|0.317	0.317	strong	.	MDH1B	89	.	NM_001039845	exon12	c.A1530C	p.E510D	TTCAAATTCTGTA	.	PASS	Atlas-SNP
SLC31A2	1318	hgsc.bcm.edu	37	9	115925104	115925104	+	Silent	SNP	C	C	T	rs3810906	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	109	254	0	0.444898	0	C|0.696;T|0.304	0.304	strong	SLC31A2,NS,carcinoma,0,1	SLC31A2	11	1	NM_001860	exon4	c.C339T	p.A113A	GCTGGCCGTAATG	.	PASS	Atlas-SNP
DEFB108B	245911	hgsc.bcm.edu	37	11	71548520	71548520	+	Missense_Mutation	SNP	A	A	T	rs12285495	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	293	289	328	0	0.986348	0	A|0.486;T|0.514	0.514	strong	.	DEFB108B	6	.	NM_001002035	exon2	c.A134T	p.H45L	AAATCCATGTTGG	.	PASS	Atlas-SNP
OPN1SW	611	hgsc.bcm.edu	37	7	128415195	128415195	+	Silent	SNP	T	T	G	rs1799922	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	19	43	0	0.395833	0	T|0.710;G|0.290	0.290	strong	OPN1SW,NS,carcinoma,0,1	OPN1SW	52	1	NM_001708	exon2	c.A366C	p.G122G	TGACCATCCTGTA	.	PASS	Atlas-SNP
NRDE2	55051	hgsc.bcm.edu	37	14	90745422	90745422	+	Missense_Mutation	SNP	T	T	C	rs3737035	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	40	122	0	0.43956	0	T|0.672;C|0.328	0.328	strong	.	.	.	.	NM_017970	exon13	c.A3353G	p.N1118S	GGGCAATTCTGAA	.	PASS	Atlas-SNP
SLC1A7	6512	hgsc.bcm.edu	37	1	53600078	53600078	+	Silent	SNP	A	A	G	rs3737989	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	32	80	0	0.385542	0	A|0.820;G|0.180	0.180	strong	.	SLC1A7	65	.	NM_006671	exon2	c.T159C	p.P53P	CTCTCCAGGGAAC	.	PASS	Atlas-SNP
REPIN1	29803	hgsc.bcm.edu	37	7	150068371	150068371	+	Missense_Mutation	SNP	T	T	C	rs3735165	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	32	64	0	0.477612	0	T|0.578;C|0.422	0.422	strong	REPIN1_ENST00000489432,NS,carcinoma,0,2	REPIN1	74	2	NM_001099695	exon3	c.T212C	p.L71P	TGGGCCTGGCCCA	.	PASS	Atlas-SNP
NLRP4	147945	hgsc.bcm.edu	37	19	56392875	56392875	+	Silent	SNP	T	T	G	rs302456	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	18	50	1	0.352941	0.02	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
KPNA7	402569	hgsc.bcm.edu	37	7	98782750	98782750	+	Silent	SNP	C	C	T	rs10953283	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	53	79	0	0.56383	0	C|0.511;N|0.000	.	strong	.	KPNA7	31	.	NM_001145715	exon7	c.G936A	p.T312T	TGTGCCCGTGACA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9002597	9002597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	311	31	282	15	0.0996785	0.0531915	.	.	none	MUC16_ENST00000397910,NS,lymphoid_neoplasm,0,2	MUC16	4315	2	NM_024690	exon51	c.G40219A	p.D13407N	CTCTGTCCAGTCC	.	scavenged	Atlas-SNP
RGS6	9628	hgsc.bcm.edu	37	14	72945012	72945012	+	Silent	SNP	T	T	C	rs2302143	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	116	102	0	1	0	T|0.889;C|0.111	0.111	strong	RGS6_ENST00000553525,NS,carcinoma,-2,2	RGS6	92	2	NM_001204424	exon12	c.T829C	p.L277L	CATTGTTTGAAAA	.	PASS	Atlas-SNP
MLX	6945	hgsc.bcm.edu	37	17	40722162	40722162	+	Silent	SNP	G	G	A	rs1474040	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	115	205	0	0.537383	0	G|0.827;A|0.173	0.173	strong	MLX,colon,carcinoma,+1,1	MLX	17	1	NM_170607	exon7	c.G801A	p.A267A	GTCAGCGTGTGTC	.	PASS	Atlas-SNP
UGT2B28	54490	hgsc.bcm.edu	37	4	70152499	70152499	+	Silent	SNP	T	T	A	rs41292341	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	3	201	1	0.0247934	0.00497512	T|0.972;A|0.028	0.028	strong	UGT2B28,caecum,carcinoma,0,1	UGT2B28	101	1	NM_053039	exon3	c.T900A	p.G300G	CTCTGGTGAAAAT	.	scavenged	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745858	50745858	+	Missense_Mutation	SNP	T	T	G	rs374020295		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	89	230	4	0.351779	0.0173913	.	.	weak	FAM186A_ENST00000327337,caecum,carcinoma,0,3	FAM186A	181	3	NM_001145475	exon4	c.A4757C	p.E1586A	CCCAGTTCCTGCG	.	scavenged	Atlas-SNP
PPP1R18	170954	hgsc.bcm.edu	37	6	30652781	30652781	+	Missense_Mutation	SNP	C	C	T	rs9262143	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	85	176	0	0.377778	0	C|0.942;T|0.058	0.058	strong	.	.	.	.	NM_001134870	exon2	c.G1015A	p.G339R	CCTTCCCGGAGTT	.	PASS	Atlas-SNP
RRBP1	6238	hgsc.bcm.edu	37	20	17610535	17610535	+	Silent	SNP	C	C	T	rs11551701	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	43	91	0	0.728814	0	C|0.925;T|0.075	0.075	strong	.	RRBP1	157	.	NM_004587	exon9	c.G1383A	p.T461T	GCTCTGCGTGTGG	.	PASS	Atlas-SNP
PTPRG	5793	hgsc.bcm.edu	37	3	61975382	61975382	+	Missense_Mutation	SNP	T	T	C	rs62620047	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	67	123	0	0.485507	0	T|0.887;C|0.113	0.113	strong	.	PTPRG	153	.	NM_002841	exon3	c.T274C	p.Y92H	GACCAGTATGCGC	.	PASS	Atlas-SNP
MAGEB16	139604	hgsc.bcm.edu	37	X	35820795	35820795	+	Missense_Mutation	SNP	A	A	G	rs5973488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	109	211	0	1	0	A|0.361;0|0.032	.	strong	.	MAGEB16	64	.	NM_001099921	exon2	c.A482G	p.H161R	CTGAGCACCTAGA	.	PASS	Atlas-SNP
LSM3	27258	hgsc.bcm.edu	37	3	14223120	14223120	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	349	4	246	1	0.0114613	0.00406504	.	.	none	LSM3,colon,carcinoma,-1,1	LSM3	13	1	NM_014463	exon2	c.C82T	p.R28X	GATGAGCGAATTT	.	scavenged	Atlas-SNP
LGR6	59352	hgsc.bcm.edu	37	1	202287206	202287206	+	Missense_Mutation	SNP	T	T	C	rs788795	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	163	135	1	0.981928	0.00740741	T|0.451;C|0.549	0.549	strong	.	LGR6	102	.	NM_001017403	exon18	c.T1775C	p.V592A	GGCCTGTCCCCCT	.	PASS	Atlas-SNP
ALG11	440138	hgsc.bcm.edu	37	13	52598799	52598799	+	Silent	SNP	G	G	A	rs61958802	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	83	176	0	0.430052	0	G|0.967;A|0.033	0.033	strong	.	ALG11	39	.	NM_001004127	exon3	c.G933A	p.P311P	TAGGCCGGAAAAG	.	PASS	Atlas-SNP
C2orf73	129852	hgsc.bcm.edu	37	2	54562012	54562012	+	Missense_Mutation	SNP	C	C	A	rs55714450	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	255	119	216	0	0.466667	0	C|0.747;A|0.253	0.253	strong	.	C2orf73	17	.	NM_001100396	exon2	c.C85A	p.H29N	ATTAAACACGAAG	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152527572	152527572	+	Missense_Mutation	SNP	C	C	T	rs7426114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	291	291	257	0	1	0	C|0.461;N|0.000	.	strong	.	NEB	1697	.	NM_004543	exon38	c.G4471A	p.V1491M	CCAACACCATGCC	.	PASS	Atlas-SNP
L1TD1	54596	hgsc.bcm.edu	37	1	62676284	62676284	+	Missense_Mutation	SNP	C	C	T	rs2886644	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	148	166	0	0.993289	0	C|0.809;T|0.191	0.191	strong	.	L1TD1	114	.	NM_001164835	exon5	c.C1838T	p.T613I	AGGAAACAGAAGA	.	PASS	Atlas-SNP
CEP170B	283638	hgsc.bcm.edu	37	14	105344293	105344293	+	Silent	SNP	C	C	T	rs61995995	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	30	86	0	0.32967	0	C|0.592;T|0.408	0.408	strong	.	.	.	.	NM_001112726	exon4	c.C267T	p.F89F	CCGCTTCGGCTAC	.	PASS	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4827330	4827330	+	Silent	SNP	C	C	T	rs17135128	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	60	125	0	0.6	0	C|0.943;T|0.057	0.057	strong	KIAA0415_ENST00000450194,rectum,carcinoma,0,2	.	.	2	NM_014855	exon11	c.C1377T	p.D459D	GGTGGACGCTGGC	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140559914	140559914	+	Missense_Mutation	SNP	T	T	C	rs2740583	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	51	138	0	0.286517	0	A|0.000;C|0.223;N|0.000;T|0.776	0.223	strong	.	PCDHB8	199	.	NM_019120	exon1	c.T2299C	p.F767L	TTCCAGTTCCTGA	.	PASS	Atlas-SNP
TF	7018	hgsc.bcm.edu	37	3	133474328	133474328	+	Silent	SNP	G	G	A	rs12769	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	83	70	0	1	0	G|0.727;A|0.273	0.273	strong	.	TF	116	.	NM_001063	exon5	c.G624A	p.S208S	CTACTCGGGAGCC	.	PASS	Atlas-SNP
SLC34A3	142680	hgsc.bcm.edu	37	9	140127725	140127725	+	Silent	SNP	C	C	T	rs34796681	bycluster;byfrequency;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	31	46	0	0.534483	0	C|0.993;T|0.007	0.007	strong	.	SLC34A3	32	.	NM_001177317	exon7	c.C625T	p.L209L	CTGCCACTGGAGA	.	PASS	Atlas-SNP
HELB	92797	hgsc.bcm.edu	37	12	66696410	66696410	+	Silent	SNP	C	C	T	rs3741604	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	96	116	0	0.57485	0	C|0.620;T|0.380	0.380	strong	.	HELB	90	.	NM_033647	exon1	c.C27T	p.R9R	CCTGCGCCAACTT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9069892	9069892	+	Missense_Mutation	SNP	A	A	C	rs1862460	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	267	154	272	1	0.576779	0.00367647	A|0.755;C|0.245	0.245	strong	.	MUC16	4315	.	NM_024690	exon3	c.T17554G	p.F5852V	TTACAAAAGGAAA	.	PASS	Atlas-SNP
DTNB	1838	hgsc.bcm.edu	37	2	25655772	25655772	+	Silent	SNP	T	T	C	rs7583475	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	30	81	0	0.434783	0	T|0.743;C|0.257	0.257	strong	.	DTNB	43	.	NM_021907	exon14	c.A1440G	p.A480A	CAGCTCTGCCAGC	.	PASS	Atlas-SNP
ZNF528	84436	hgsc.bcm.edu	37	19	52909200	52909200	+	Missense_Mutation	SNP	A	A	G	rs370656674		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	96	197	0	0.48	0	.	.	weak	.	ZNF528	95	.	NM_032423	exon5	c.A56G	p.Q19R	TCTCTCAGGAAGA	.	PASS	Atlas-SNP
UPF3A	65110	hgsc.bcm.edu	37	13	115067419	115067419	+	Silent	SNP	G	G	A	rs146464930	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	60	140	0	0.521739	0	G|0.991;A|0.009	0.009	strong	.	UPF3A	47	.	NM_023011	exon9	c.G1221A	p.P407P	GGCTCCGGGGGAG	.	PASS	Atlas-SNP
MCM9	254394	hgsc.bcm.edu	37	6	119137011	119137011	+	Missense_Mutation	SNP	G	G	A	rs35917528	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	5	30	0	0.238095	0	G|0.926;A|0.074	0.074	strong	.	MCM9	73	.	NM_017696	exon12	c.C2408T	p.P803L	TCTCCTGGTGATG	.	PASS	Atlas-SNP
ACP6	51205	hgsc.bcm.edu	37	1	147131103	147131103	+	Silent	SNP	C	C	T	rs11800736	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	259	143	171	0	0.552124	0	C|0.966;T|0.034	0.034	strong	.	ACP6	36	.	NM_016361	exon4	c.G531A	p.L177L	CCCAGCCAGCAAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	176	227	0	0.961749	0	G|0.731;T|0.269	0.269	strong	.	CDH19	141	.	NM_021153	exon11	c.C1695A	p.T565T	GGTAAGGGTGTTT	.	PASS	Atlas-SNP
HACL1	26061	hgsc.bcm.edu	37	3	15637914	15637914	+	Silent	SNP	G	G	A	rs74506826	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	294	125	222	0	0.42517	0	G|0.982;A|0.018	0.018	strong	.	HACL1	33	.	NM_012260	exon3	c.C204T	p.S68S	AATCGCGGAGGCA	.	PASS	Atlas-SNP
WDR35	57539	hgsc.bcm.edu	37	2	20131079	20131079	+	Missense_Mutation	SNP	T	T	C	rs1191778	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	89	165	0	0.442786	0	T|0.710;C|0.290	0.290	strong	WDR35,NS,carcinoma,-1,1	WDR35	92	1	NM_001006657	exon25	c.A2948G	p.E983G	ATCTGTTCATGGT	.	PASS	Atlas-SNP
ZNF419	79744	hgsc.bcm.edu	37	19	58002964	58002964	+	Silent	SNP	G	G	C	rs8108040	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	105	260	0	0.458515	0	G|0.730;C|0.270	0.270	strong	.	ZNF419	134	.	NM_001098494	exon3	c.G201C	p.L67L	CTCTCTGGGTAAG	.	PASS	Atlas-SNP
FAM26F	441168	hgsc.bcm.edu	37	6	116783330	116783330	+	Missense_Mutation	SNP	G	G	A	rs3087828		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	11	7	22	0	0.636364	0	.	.	weak	.	FAM26F	12	.	NM_001010919	exon2	c.G238A	p.E80K	CTCACCGGATGCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	36	84	0	0.423529	0	T|0.778;C|0.222	0.222	strong	.	MUC16	4315	.	NM_024690	exon3	c.A21814G	p.I7272V	CACCAATGGACAC	.	PASS	Atlas-SNP
CMC2	56942	hgsc.bcm.edu	37	16	81010073	81010073	+	Missense_Mutation	SNP	C	C	T	rs8388		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	9	29	0	0.409091	0	.	.	weak	.	.	.	.	NM_020188	exon4	c.G157A	p.V53I	TTTCTACGTACTG	.	PASS	Atlas-SNP
MYBPC1	4604	hgsc.bcm.edu	37	12	102045163	102045163	+	Missense_Mutation	SNP	C	C	G	rs3817552	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	127	119	0	0.984496	0	C|0.844;G|0.156	0.156	strong	.	MYBPC1	235	.	NM_206819	exon16	c.C1518G	p.H506Q	GGTTCACAAGGGA	.	PASS	Atlas-SNP
OR2M7	391196	hgsc.bcm.edu	37	1	248487016	248487016	+	Silent	SNP	C	C	T	rs4451579	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	295	146	272	1	0.494915	0.00367647	C|0.847;T|0.153	0.153	strong	.	OR2M7	84	.	NM_001004691	exon1	c.G855A	p.L285L	AGGATTCAGCATG	.	PASS	Atlas-SNP
ACACB	32	hgsc.bcm.edu	37	12	109665242	109665242	+	Missense_Mutation	SNP	G	G	A	rs60293430	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	64	91	0	0.533333	0	G|0.932;A|0.068	0.068	strong	.	ACACB	330	.	NM_001093	exon27	c.G3949A	p.G1317S	CCGGACGGCACCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	81	135	0	0.570423	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
RPAP1	26015	hgsc.bcm.edu	37	15	41813279	41813279	+	Silent	SNP	C	C	T	rs3743031	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	65	170	0	0.369318	0	C|0.680;T|0.320	0.320	strong	RPAP1,NS,carcinoma,0,1	RPAP1	111	1	NM_015540	exon22	c.G3105A	p.R1035R	AGGGACCCTGCTG	.	PASS	Atlas-SNP
NPHP4	261734	hgsc.bcm.edu	37	1	5937168	5937168	+	Silent	SNP	G	G	A	rs3747992	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	81	240	0	0.435484	0	G|0.536;A|0.464	0.464	strong	NPHP4,NS,carcinoma,0,2	NPHP4	119	2	NM_015102	exon20	c.C2802T	p.R934R	CGTCCCGCGCCGG	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65253749	65253749	+	Silent	SNP	C	C	T	rs72724498	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	27	76	0	0.397059	0	C|0.988;T|0.012	0.012	strong	.	SPTB	378	.	NM_001024858	exon15	c.G2934A	p.E978E	TGTGGACTCCACT	.	PASS	Atlas-SNP
MTBP	27085	hgsc.bcm.edu	37	8	121463425	121463425	+	Silent	SNP	T	T	C	rs61753755	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	24	86	0	0.444444	0	T|0.966;C|0.034	0.034	strong	.	MTBP	77	.	NM_022045	exon4	c.T288C	p.D96D	TTCTGATTGGCAA	.	PASS	Atlas-SNP
NYAP1	222950	hgsc.bcm.edu	37	7	100086246	100086246	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	13	150	0	0.142857	0	.	.	none	.	.	.	.	NM_173564	exon4	c.G902A	p.R301H	CCCACCGCCGCCC	.	PASS	Atlas-SNP
TLE3	7090	hgsc.bcm.edu	37	15	70346923	70346923	+	Silent	SNP	C	C	T	rs2228178	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	33	74	0	0.515625	0	C|0.629;T|0.371	0.371	strong	TLE3,bladder,carcinoma,-1,1	TLE3	104	1	NM_005078	exon16	c.G1689A	p.S563S	CGTGGGCGAGGCC	.	PASS	Atlas-SNP
STX8	9482	hgsc.bcm.edu	37	17	9471711	9471711	+	Silent	SNP	T	T	G	rs1133295	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	63	121	0	0.480916	0	T|0.339;G|0.661	0.661	strong	.	STX8	28	.	NM_004853	exon2	c.A94C	p.R32R	CTTTTCTTTCATA	.	PASS	Atlas-SNP
C10orf90	118611	hgsc.bcm.edu	37	10	128193400	128193400	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	3	115	0	0.0265487	0	.	.	none	C10orf90,colon,carcinoma,0,1	C10orf90	121	1	NM_001004298	exon3	c.G369A	p.P123P	TTTGGGCGGCAGC	.	scavenged	Atlas-SNP
GLYATL3	389396	hgsc.bcm.edu	37	6	49479750	49479750	+	Missense_Mutation	SNP	T	T	C	rs13193063	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	38	75	0	0.436782	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
B3GNT3	10331	hgsc.bcm.edu	37	19	17922666	17922666	+	Missense_Mutation	SNP	G	G	A	rs77134098	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	37	65	0	0.528571	0	G|0.983;A|0.017	0.017	strong	B3GNT3,extremity,malignant_melanoma,+1,1	B3GNT3	40	1	NM_014256	exon3	c.G854A	p.R285H	TGCGCCGTGCTGC	.	PASS	Atlas-SNP
CDKL1	8814	hgsc.bcm.edu	37	14	50799126	50799126	+	Missense_Mutation	SNP	G	G	C	rs7161563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	111	221	0	0.493333	0	G|0.424;C|0.576	0.576	strong	CDKL1_ENST00000395834,NS,adenoma,0,2	CDKL1	50	2	NM_004196	exon8	c.C823G	p.Q275E	GCCTTTGAGTAGG	.	PASS	Atlas-SNP
LMX1B	4010	hgsc.bcm.edu	37	9	129453229	129453229	+	Silent	SNP	A	A	G	rs2277158	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	48	111	0	0.489796	0	A|0.530;G|0.470	0.470	strong	.	LMX1B	86	.	NM_001174146	exon3	c.A441G	p.E147E	GTGTGAACGGCAG	.	PASS	Atlas-SNP
KLC3	147700	hgsc.bcm.edu	37	19	45849909	45849909	+	Silent	SNP	A	A	G	rs9749618	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	11	76	0	0.323529	0	A|0.790;G|0.210	0.210	strong	KLC3,colon,carcinoma,0,1	KLC3	37	1	NM_177417	exon3	c.A366G	p.E122E	GGAGGAACTGGAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	152	150	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
NQO2	4835	hgsc.bcm.edu	37	6	3015865	3015865	+	Silent	SNP	C	C	T	rs4149367	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	46	60	0	0.425926	0	C|0.841;T|0.159	0.159	strong	.	NQO2	21	.	NM_000904	exon5	c.C405T	p.S135S	CGATTCCGGTTTG	.	PASS	Atlas-SNP
OR5AR1	219493	hgsc.bcm.edu	37	11	56431216	56431216	+	Nonsense_Mutation	SNP	C	C	T	rs11228710	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	123	235	1	0.582938	0.00425532	C|0.411;N|0.000	.	strong	.	OR5AR1	68	.	NM_001004730	exon1	c.C55T	p.Q19X	ATCACCCAGGACC	.	PASS	Atlas-SNP
OR12D3	81797	hgsc.bcm.edu	37	6	29342825	29342825	+	Silent	SNP	G	G	A	rs3749970	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	50	80	0	0.45045	0	G|0.667;A|0.333	0.333	strong	OR12D3,NS,carcinoma,0,1	OR12D3	55	1	NM_030959	exon1	c.C240T	p.L80L	GTTTACGAGCAGC	.	PASS	Atlas-SNP
FAM136A	84908	hgsc.bcm.edu	37	2	70524577	70524577	+	Silent	SNP	G	G	A	rs2618235	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	39	86	0	0.364486	0	G|0.748;A|0.252	0.252	strong	FAM136A,right_upper_lobe,carcinoma,-2,1	FAM136A	14	1	NM_032822	exon3	c.C261T	p.N87N	TTTGTCGTTGCAA	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910759	29910759	+	Missense_Mutation	SNP	T	T	C	rs1071742	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	77	176	0	0.359813	0	A|0.129;C|0.082;T|0.790	0.082	strong	HLA-A,rectum,carcinoma,0,1	HLA-A	89	1	NM_001242758	exon2	c.T299C	p.V100A	ACCGAGTGGACCT	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88782079	88782079	+	Silent	SNP	G	G	A	rs1061228	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	30	53	0	0.434783	0	T|0.000;G|0.884;C|0.000;A|0.115	0.115	strong	.	PIEZO1	79	.	NM_001142864	exon51	c.C7500T	p.Y2500Y	CTTGGCGTACAAC	.	PASS	Atlas-SNP
GPR162	27239	hgsc.bcm.edu	37	12	6935955	6935955	+	Silent	SNP	T	T	C	rs35717080	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	57	95	0	0.537736	0	T|0.912;C|0.088	0.088	strong	.	GPR162	55	.	NM_019858	exon5	c.T1353C	p.G451G	CGGGGGTCCTCCT	.	PASS	Atlas-SNP
SEC14L3	266629	hgsc.bcm.edu	37	22	30857373	30857373	+	Missense_Mutation	SNP	A	A	C	rs2240345	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	97	181	0	0.494898	0	A|0.265;C|0.735	0.735	strong	SEC14L3,NS,lymphoid_neoplasm,0,1	SEC14L3	46	1	NM_174975	exon11	c.T1005G	p.D335E	TAGAACATCTGTC	.	PASS	Atlas-SNP
ZNF618	114991	hgsc.bcm.edu	37	9	116770776	116770776	+	Silent	SNP	C	C	T	rs3748183	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	118	112	0	1	0	C|0.649;T|0.351	0.351	strong	.	ZNF618	184	.	NM_133374	exon8	c.C600T	p.V200V	AGGTGTCGTGGCC	.	PASS	Atlas-SNP
KRTAP10-3	386682	hgsc.bcm.edu	37	21	45978592	45978592	+	Missense_Mutation	SNP	T	T	C	rs452472	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	95	195	0	0.479798	0	T|0.735;C|0.265	0.265	strong	KRTAP10-3,rectum,carcinoma,0,1	KRTAP10-3	17	1	NM_198696	exon1	c.A7G	p.T3A	TAGACGTGGCCAT	.	PASS	Atlas-SNP
NSFL1C	55968	hgsc.bcm.edu	37	20	1426393	1426393	+	Missense_Mutation	SNP	C	C	T	rs9575	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	102	224	0	0.419753	0	C|0.589;T|0.411	0.411	strong	NSFL1C,colon,carcinoma,+2,2	NSFL1C	38	2	NM_016143	exon8	c.G868A	p.D290N	ATTCGTCGATTAA	.	PASS	Atlas-SNP
ARHGAP12	94134	hgsc.bcm.edu	37	10	32141460	32141460	+	Silent	SNP	T	T	C	rs2799021	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	71	160	0	0.461039	0	T|0.798;C|0.202	0.202	strong	.	ARHGAP12	79	.	NM_001270696	exon6	c.A1155G	p.E385E	TTCCCATTCTGAC	.	PASS	Atlas-SNP
CPNE1	8904	hgsc.bcm.edu	37	20	34214723	34214723	+	Silent	SNP	T	T	C	rs2425068	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	38	82	0	0.457831	0	T|0.956;C|0.044	0.044	strong	.	CPNE1	44	.	NM_003915	exon15	c.A1254G	p.Q418Q	GAAGTATTGCTGG	.	PASS	Atlas-SNP
CDHR2	54825	hgsc.bcm.edu	37	5	176011889	176011889	+	Silent	SNP	G	G	A	rs4868660	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	67	194	0	0.314554	0	G|0.727;A|0.273	0.273	strong	.	CDHR2	152	.	NM_017675	exon19	c.G2607A	p.A869A	AGTGGCGGCCAAC	.	PASS	Atlas-SNP
TMEM254	80195	hgsc.bcm.edu	37	10	81841692	81841692	+	Missense_Mutation	SNP	G	G	T	rs1932574	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	37	71	0	0.513889	0	G|0.607;T|0.393	0.393	strong	.	TMEM254	1	.	NM_001270371	exon3	c.G278T	p.C93F	CCTCCTGTGCAAT	.	PASS	Atlas-SNP
ADCK1	57143	hgsc.bcm.edu	37	14	78374172	78374172	+	Silent	SNP	C	C	T	rs34272020	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	54	97	0	0.465517	0	C|0.893;T|0.107	0.107	strong	.	ADCK1	81	.	NM_020421	exon7	c.C768T	p.S256S	CCTGTCCACGGAG	.	PASS	Atlas-SNP
OR2G3	81469	hgsc.bcm.edu	37	1	247769217	247769217	+	Silent	SNP	T	T	G	rs61750030	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	339	170	354	1	0.501475	0.00282486	T|0.934;G|0.066	0.066	strong	OR2G3,NS,carcinoma,+2,1	OR2G3	108	1	NM_001001914	exon1	c.T330G	p.T110T	CTCCACTGAATGT	.	PASS	Atlas-SNP
FBXL18	80028	hgsc.bcm.edu	37	7	5521468	5521468	+	Silent	SNP	G	G	A	rs10951956	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	49	93	0	0.449541	0	G|0.878;A|0.122	0.122	strong	.	FBXL18	99	.	NM_024963	exon5	c.C2095T	p.L699L	CATCCAGGTGCAC	.	PASS	Atlas-SNP
SLC9A4	389015	hgsc.bcm.edu	37	2	103149100	103149100	+	Missense_Mutation	SNP	G	G	A	rs1014286	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	44	69	0	0.5	0	G|0.366;N|0.000	.	strong	.	SLC9A4	115	.	NM_001011552	exon12	c.G2350A	p.G784S	GGACACGGCAGGG	.	PASS	Atlas-SNP
DSCR4	10281	hgsc.bcm.edu	37	21	39493232	39493232	+	Missense_Mutation	SNP	G	G	A	rs61731605	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	25	67	0	0.454545	0	G|0.980;A|0.020	0.020	strong	.	DSCR4	20	.	NM_005867	exon1	c.C118T	p.P40S	GGAGAGGAGAAGC	.	PASS	Atlas-SNP
PPP2R3A	5523	hgsc.bcm.edu	37	3	135720673	135720673	+	Silent	SNP	T	T	C	rs9872542	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	45	83	0	0.529412	0	T|0.802;C|0.198	0.198	strong	.	PPP2R3A	114	.	NM_002718	exon2	c.T333C	p.D111D	AAAGGATATTGCA	.	PASS	Atlas-SNP
P2RX7	5027	hgsc.bcm.edu	37	12	121605355	121605355	+	Missense_Mutation	SNP	G	G	A	rs7958311	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	59	131	0	0.437037	0	A|0.265;G|0.735;N|0.000	0.265	strong	P2RX7,NS,carcinoma,0,1	P2RX7	53	1	NM_002562	exon8	c.G809A	p.R270H	ACTGCCGTCCCAA	.	PASS	Atlas-SNP
FLT4	2324	hgsc.bcm.edu	37	5	180046344	180046344	+	Missense_Mutation	SNP	G	G	C	rs448012	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	49	42	0	1	0	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	.	PASS	Atlas-SNP
HSD17B14	51171	hgsc.bcm.edu	37	19	49334991	49334991	+	Silent	SNP	C	C	T	rs62127966	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	87	176	0	0.505814	0	C|0.873;T|0.127	0.127	strong	.	HSD17B14	25	.	NM_016246	exon5	c.G303A	p.E101E	AGAGGTCTCCTCA	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121258368	121258368	+	Silent	SNP	G	G	A	rs36065146	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	126	281	0	0.531646	0	G|0.962;A|0.038	0.038	strong	.	POLQ	273	.	NM_199420	exon4	c.C543T	p.F181F	TGAAGAGAAATGC	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6585007	6585007	+	Missense_Mutation	SNP	G	G	A	rs11040923	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	31	58	0	0.5	0	G|0.573;A|0.427	0.427	strong	.	DNHD1	198	.	NM_144666	exon31	c.G9937A	p.D3313N	ATGGACGATGCAG	.	PASS	Atlas-SNP
HORMAD2	150280	hgsc.bcm.edu	37	22	30489945	30489945	+	Missense_Mutation	SNP	G	G	A	rs34150968	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	110	243	1	0.441767	0.00411523	G|0.993;A|0.007	0.007	strong	.	HORMAD2	12	.	NM_152510	exon2	c.G4A	p.A2T	ACAATGGCCACTG	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103410914	103410914	+	Missense_Mutation	SNP	A	A	T	rs12855785	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	32	82	0	0.395062	0	A|0.627;T|0.373	0.373	strong	.	.	.	.	NM_001146197	exon2	c.T244A	p.C82S	TGGGGCAACTGTC	.	PASS	Atlas-SNP
AGGF1	55109	hgsc.bcm.edu	37	5	76332530	76332530	+	Silent	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	6	174	1	0.0298507	0.00574713	.	.	none	AGGF1,NS,carcinoma,+2,1	AGGF1	71	1	NM_018046	exon4	c.T666G	p.G222G	CACTGGTTTCTAT	.	scavenged	Atlas-SNP
DISC1	27185	hgsc.bcm.edu	37	1	231903010	231903010	+	Silent	SNP	C	C	T	rs3738402	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	39	81	0	0.4875	0	C|0.937;T|0.063	0.063	strong	.	DISC1	207	.	NM_001164537	exon6	c.C1489T	p.L497L	CAGCAGCTACAGG	.	PASS	Atlas-SNP
EVC	2121	hgsc.bcm.edu	37	4	5721021	5721021	+	Missense_Mutation	SNP	A	A	C	rs2291157	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	49	120	0	0.485149	0	A|0.908;C|0.092	0.092	strong	.	EVC	90	.	NM_153717	exon2	c.A221C	p.Q74P	ATGCGCAGACCCC	.	PASS	Atlas-SNP
ADAM7	8756	hgsc.bcm.edu	37	8	24339679	24339679	+	Missense_Mutation	SNP	G	G	A	rs13255694	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	78	77	0	1	0	G|0.755;A|0.245	0.245	strong	.	ADAM7	165	.	NM_003817	exon9	c.G730A	p.V244M	ATCCATGTGACGT	.	PASS	Atlas-SNP
ITGB2	3689	hgsc.bcm.edu	37	21	46330674	46330674	+	Silent	SNP	C	C	A	rs11088969	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	40	112	0	0.519481	0	C|0.796;A|0.204	0.204	strong	.	ITGB2	107	.	NM_000211	exon2	c.G24T	p.L8L	GGCGAGCAGTGGG	.	PASS	Atlas-SNP
NUP54	53371	hgsc.bcm.edu	37	4	77057501	77057501	+	Silent	SNP	A	A	G	rs11558468	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	92	135	0	0.575	0	A|0.865;G|0.135	0.135	strong	.	NUP54	48	.	NM_017426	exon4	c.T360C	p.T120T	ACTCGCAGTATTT	.	PASS	Atlas-SNP
PLXNC1	10154	hgsc.bcm.edu	37	12	94673277	94673277	+	Silent	SNP	G	G	A	rs2230760	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	29	87	0	0.386667	0	G|0.888;A|0.112	0.112	strong	PLXNC1,NS,carcinoma,0,1	PLXNC1	135	1	NM_005761	exon22	c.G3627A	p.P1209P	AATCCCGGAAAAC	.	PASS	Atlas-SNP
TXK	7294	hgsc.bcm.edu	37	4	48069696	48069696	+	Silent	SNP	G	G	C	rs2230594	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	83	175	0	0.453552	0	G|0.528;C|0.472	0.472	strong	.	TXK	58	.	NM_003328	exon15	c.C1542G	p.A514A	CAGCTCGGCAAAT	.	PASS	Atlas-SNP
FLNC	2318	hgsc.bcm.edu	37	7	128484816	128484816	+	Silent	SNP	A	A	G	rs3734973	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	47	99	0	0.431193	0	A|0.663;G|0.337	0.337	strong	FLNC,caecum,carcinoma,+2,1	FLNC	339	1	NM_001127487	exon21	c.A3297G	p.V1099V	GACCGTAGAGGGC	.	PASS	Atlas-SNP
TTC12	54970	hgsc.bcm.edu	37	11	113194168	113194168	+	Missense_Mutation	SNP	A	A	C	rs723077	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	23	85	0	0.343284	0	A|0.618;C|0.382	0.382	strong	TTC12,NS,adenoma,0,2	TTC12	66	2	NM_017868	exon3	c.A217C	p.M73L	ACTGCTATGAAGG	.	PASS	Atlas-SNP
ZC3H12A	80149	hgsc.bcm.edu	37	1	37948912	37948912	+	Silent	SNP	C	C	T	rs41267299	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	55	191	0	0.325444	0	C|0.943;T|0.057	0.057	strong	.	ZC3H12A	58	.	NM_025079	exon6	c.C1500T	p.A500A	CCCTGCCGACTAC	.	PASS	Atlas-SNP
SCN8A	6334	hgsc.bcm.edu	37	12	52184271	52184271	+	Silent	SNP	T	T	C	rs303815	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	68	85	0	1	0	T|0.438;C|0.562	0.562	strong	.	SCN8A	331	.	NM_014191	exon25	c.T4509C	p.P1503P	GAAACCTATTCCC	.	PASS	Atlas-SNP
MYH8	4626	hgsc.bcm.edu	37	17	10296486	10296486	+	Silent	SNP	G	G	A	rs33969260	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268	138	233	1	0.514925	0.00429185	G|0.826;A|0.174	0.174	strong	.	MYH8	346	.	NM_002472	exon36	c.C5208T	p.D1736D	GGAAACGTCATTT	.	PASS	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	37	1	118535211	118535211	+	Missense_Mutation	SNP	T	T	C	rs35290515	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	75	185	0	0.414365	0	T|0.979;C|0.021	0.021	strong	.	SPAG17	263	.	NM_206996	exon36	c.A5239G	p.K1747E	GCTGTTTGGACTC	.	PASS	Atlas-SNP
ANKRD66	100287718	hgsc.bcm.edu	37	6	46726500	46726500	+	Missense_Mutation	SNP	C	C	A	rs9472839	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	21	64	0	0.333333	0	C|0.903;A|0.097	0.097	strong	.	.	.	.	NM_001162435	exon5	c.C598A	p.Q200K	GCCCAGCAGAAGG	.	PASS	Atlas-SNP
BCL6	604	hgsc.bcm.edu	37	3	187446211	187446211	+	Missense_Mutation	SNP	C	C	T	rs2229362	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	112	144	0	0.568528	0	C|0.782;T|0.218	0.218	strong	.	BCL6	107	.	NM_001134738	exon5	c.G1477A	p.A493T	GGCCAGCGGTGTG	.	PASS	Atlas-SNP
EPN3	55040	hgsc.bcm.edu	37	17	48616271	48616271	+	Silent	SNP	C	C	T	rs72835715	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	142	312	0	0.523985	0	C|0.973;T|0.027	0.027	strong	.	EPN3	32	.	NM_017957	exon4	c.C708T	p.D236D	CAGGGACGAGGAC	.	PASS	Atlas-SNP
C11orf35	256329	hgsc.bcm.edu	37	11	557989	557989	+	Silent	SNP	C	C	T	rs7129811	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	45	94	0	0.45	0	C|0.559;T|0.441	0.441	strong	.	C11orf35	22	.	NM_173573	exon5	c.G450A	p.Q150Q	CATCTCCTGGAGC	.	PASS	Atlas-SNP
ARHGAP28	79822	hgsc.bcm.edu	37	18	6889973	6889973	+	Silent	SNP	A	A	G	rs4239328	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	57	121	0	0.558824	0	A|0.424;G|0.576	0.576	strong	.	ARHGAP28	181	.	NM_001010000	exon12	c.A1146G	p.P382P	GGCACCAAACCTT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512287	195512287	+	Missense_Mutation	SNP	G	G	A	rs113602668	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	417	99	160	0	0.23741	0	G|0.843;A|0.157	0.157	strong	.	MUC4	1505	.	NM_018406	exon2	c.C6164T	p.S2055F	ACTGAGGAAAGGC	.	PASS	Atlas-SNP
EPB41L3	23136	hgsc.bcm.edu	37	18	5397383	5397383	+	Missense_Mutation	SNP	G	G	A	rs61736460	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	20	68	0	0.4	0	G|0.984;A|0.016	0.016	strong	.	EPB41L3	222	.	NM_012307	exon18	c.C2515T	p.P839S	CGGTGGGTTCCGT	.	PASS	Atlas-SNP
SLCO4C1	353189	hgsc.bcm.edu	37	5	101631761	101631761	+	Missense_Mutation	SNP	T	T	C	rs76381196	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	64	136	0	0.533333	0	T|0.966;C|0.034	0.034	strong	.	SLCO4C1	113	.	NM_180991	exon1	c.A206G	p.N69S	GAGACATTGGGAG	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50746917	50746917	+	Missense_Mutation	SNP	A	A	G	rs10876023	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	260	132	245	11	0.507692	0.044898	A|0.349;G|0.651	0.651	strong	FAM186A_ENST00000327337,NS,carcinoma,0,1	FAM186A	181	1	NM_001145475	exon4	c.T3698C	p.L1233P	TGCTGAAGGGTTA	.	scavenged	Atlas-SNP
PCTP	58488	hgsc.bcm.edu	37	17	53851228	53851228	+	Silent	SNP	C	C	T	rs2960062	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	36	38	0	1	0	C|0.205;T|0.795	0.795	strong	.	PCTP	17	.	NM_021213	exon4	c.C483T	p.I161I	GGCGATCGAGAGT	.	PASS	Atlas-SNP
LARS	51520	hgsc.bcm.edu	37	5	145508340	145508340	+	Silent	SNP	A	A	G	rs2895647	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	282	84	260	0	0.297872	0	A|0.799;G|0.201	0.201	strong	.	LARS	100	.	NM_020117	exon27	c.T2775C	p.T925T	TTTGTCAGTCTTC	.	PASS	Atlas-SNP
MEFV	4210	hgsc.bcm.edu	37	16	3293888	3293888	+	Missense_Mutation	SNP	C	C	T	rs1231122	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	64	138	0	0.450704	0	C|0.608;T|0.392	0.392	strong	MEFV,rectum,carcinoma,-1,1	MEFV	170	1	NM_001198536	exon8	c.G1306A	p.G436R	CAGCTCCGGAACT	.	PASS	Atlas-SNP
ASAP3	55616	hgsc.bcm.edu	37	1	23763449	23763449	+	Silent	SNP	G	G	A	rs115515935	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	45	120	0	0.681818	0	G|0.932;A|0.068	0.068	strong	.	ASAP3	65	.	NM_017707	exon15	c.C1431T	p.R477R	CTGCATGCGCGAA	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536451	88536451	+	Silent	SNP	C	C	T	rs141946550		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	308	31	286	0	0.100649	0	.	.	weak	DSPP,colon,carcinoma,0,1	DSPP	174	1	NM_014208	exon5	c.C2637T	p.S879S	TGACAGCAGTGAT	.	PASS	Atlas-SNP
FAM129C	199786	hgsc.bcm.edu	37	19	17650053	17650053	+	Silent	SNP	G	G	A	rs74546231	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	23	73	0	0.605263	0	G|0.962;A|0.038	0.038	strong	FAM129C_ENST00000332386,NS,carcinoma,0,2	FAM129C	110	2	NM_001098524	exon7	c.G783A	p.V261V	CGACGTGACCCTA	.	PASS	Atlas-SNP
UQCRFS1	7386	hgsc.bcm.edu	37	19	29699033	29699033	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	8	63	4	0.119403	0.0634921	.	.	none	UQCRFS1,NS,carcinoma,0,4	UQCRFS1	23	4	NM_006003	exon2	c.A247G	p.I83V	CCTTGATGTCTGT	.	scavenged	Atlas-SNP
CECR5	27440	hgsc.bcm.edu	37	22	17630486	17630486	+	Silent	SNP	C	C	A	rs1034859	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	21	46	0	0.42	0	C|0.487;A|0.513	0.513	strong	.	CECR5	46	.	NM_033070	exon2	c.G276T	p.G92G	GATGTTCCCAGCA	.	PASS	Atlas-SNP
REPIN1	29803	hgsc.bcm.edu	37	7	150068620	150068620	+	Missense_Mutation	SNP	C	C	T	rs17173703	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	29	58	0	0.591837	0	C|0.765;T|0.235	0.235	strong	.	REPIN1	74	.	NM_001099695	exon3	c.C461T	p.A154V	GCCATGCCCCCTT	.	PASS	Atlas-SNP
GBP4	115361	hgsc.bcm.edu	37	1	89652097	89652097	+	Missense_Mutation	SNP	C	C	T	rs1142886	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	135	468	0	0.985401	0	C|0.619;T|0.381	0.381	strong	.	GBP4	89	.	NM_052941	exon10	c.G1626A	p.M542I	TTGGGCCATGTAT	.	PASS	Atlas-SNP
PHIP	55023	hgsc.bcm.edu	37	6	79656562	79656562	+	Silent	SNP	A	A	T	rs2275291	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	30	85	0	0.47619	0	A|0.719;T|0.281	0.281	strong	.	PHIP	177	.	NM_017934	exon37	c.T4236A	p.A1412A	AAAGAAAGCAGAC	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745783	50745783	+	Missense_Mutation	SNP	T	T	A	rs373687267		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	257	87	170	2	0.338521	0.0117647	.	.	weak	FAM186A_ENST00000327337,NS,carcinoma,0,1	FAM186A	181	1	NM_001145475	exon4	c.A4832T	p.Q1611L	ATCCCCTGAGCCT	.	scavenged	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201181920	201181920	+	Silent	SNP	G	G	T	rs12060924	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	189	112	0	0.994737	0	G|0.691;T|0.309	0.309	strong	.	IGFN1	220	.	NM_001164586	exon12	c.G7899T	p.G2633G	CCAGGGGTTTAGC	.	PASS	Atlas-SNP
TRIM38	10475	hgsc.bcm.edu	37	6	25983777	25983777	+	Silent	SNP	C	C	T	rs17528178	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	112	167	0	0.551724	0	C|0.942;G|0.000;T|0.058	0.058	strong	.	TRIM38	50	.	NM_006355	exon8	c.C1260T	p.A420A	TGAGGCCGGAGTT	.	PASS	Atlas-SNP
MCPH1	79648	hgsc.bcm.edu	37	8	6296550	6296550	+	Missense_Mutation	SNP	G	G	T	rs2442513	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	33	45	0	0.970588	0	G|0.081;T|0.919	0.919	strong	.	MCPH1	65	.	NM_001172574	exon6	c.G513T	p.R171S	TAGTAGGCACCAC	.	PASS	Atlas-SNP
F8	2157	hgsc.bcm.edu	37	X	154158201	154158201	+	Silent	SNP	T	T	G	rs1800292	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	81	144	0	0.987805	0	T|0.888;0|0.022	.	strong	.	F8	646	.	NM_000132	exon14	c.A3864C	p.S1288S	TTTTTTTGAGAAA	.	PASS	Atlas-SNP
SULF2	55959	hgsc.bcm.edu	37	20	46365636	46365636	+	Missense_Mutation	SNP	C	C	T	rs56218501	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250	142	215	0	0.568	0	C|0.856;G|0.000;T|0.144	0.144	strong	SULF2,colon,carcinoma,+2,3	SULF2	131	3	NM_001161841	exon3	c.G226A	p.A76T	AGTGCGCCCCGCC	.	PASS	Atlas-SNP
GPC2	221914	hgsc.bcm.edu	37	7	99768957	99768957	+	Silent	SNP	C	C	T	rs75779608	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	62	168	0	0.626263	0	C|0.885;T|0.115	0.115	strong	GPC2,NS,haematopoietic_neoplasm,0,1	GPC2	49	1	NM_152742	exon9	c.G1413A	p.R471R	CTGTAGCCGACGC	.	PASS	Atlas-SNP
C2orf61	285051	hgsc.bcm.edu	37	2	47378611	47378611	+	Missense_Mutation	SNP	T	T	C	rs71423949	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	91	141	0	0.548193	0	T|0.983;C|0.017	0.017	strong	C2orf61_ENST00000445927,NS,carcinoma,-1,2	C2orf61	31	2	NM_173649	exon3	c.A185G	p.E62G	GATTCTTCAATAA	.	PASS	Atlas-SNP
AKR1C3	8644	hgsc.bcm.edu	37	10	5138747	5138747	+	Missense_Mutation	SNP	A	A	G	rs11551177	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	328	157	285	1	0.478659	0.00350877	A|0.950;G|0.050	0.050	strong	.	AKR1C3	21	.	NM_001253908	exon2	c.A230G	p.E77G	AGAGAGAAGACAT	.	PASS	Atlas-SNP
ZSCAN12	9753	hgsc.bcm.edu	37	6	28358320	28358320	+	Missense_Mutation	SNP	A	A	G	rs1361385	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	98	222	0	0.390438	0	A|0.632;G|0.368	0.368	strong	.	ZSCAN12	35	.	NM_001163391	exon4	c.T1747C	p.C583R	CTTTACATACATA	.	PASS	Atlas-SNP
CNTRL	11064	hgsc.bcm.edu	37	9	123929770	123929770	+	Silent	SNP	C	C	T	rs61745682	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	105	190	0	0.552632	0	C|0.881;T|0.119	0.119	strong	.	CNTRL	161	.	NM_007018	exon35	c.C5659T	p.L1887L	AAGGACCTGCTTC	.	PASS	Atlas-SNP
ECM1	1893	hgsc.bcm.edu	37	1	150483355	150483355	+	Missense_Mutation	SNP	C	C	T	rs3737240	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	80	178	0	0.414508	0	C|0.728;T|0.272	0.272	strong	ECM1_ENST00000369049,NS,carcinoma,0,2	ECM1	96	2	NM_001202858	exon6	c.C470T	p.T157M	CAGGAACGCCAGC	.	PASS	Atlas-SNP
EIF3A	8661	hgsc.bcm.edu	37	10	120828969	120828969	+	Silent	SNP	A	A	G	rs7908387	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	83	79	0	0.988095	0	A|0.196;G|0.804	0.804	strong	.	EIF3A	142	.	NM_003750	exon6	c.T939C	p.D313D	CATCTCATCTTGT	.	PASS	Atlas-SNP
SLC5A12	159963	hgsc.bcm.edu	37	11	26705310	26705310	+	Silent	SNP	A	A	G	rs3924551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	55	64	0	1	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
GALNT9	50614	hgsc.bcm.edu	37	12	132862868	132862868	+	Silent	SNP	G	G	A	rs78370891	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	359	178	329	0	0.495822	0	G|0.934;A|0.066	0.066	strong	.	GALNT9	74	.	NM_001122636	exon2	c.C387T	p.L129L	CCGATCGAGGGAG	.	PASS	Atlas-SNP
CLRN2	645104	hgsc.bcm.edu	37	4	17528570	17528570	+	Silent	SNP	G	G	C	rs2597792	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	86	170	0	0.508876	0	G|0.952;C|0.048	0.048	strong	.	CLRN2	40	.	NM_001079827	exon3	c.G564C	p.S188S	AGAGTCGTTTTGG	.	PASS	Atlas-SNP
MAP4K3	8491	hgsc.bcm.edu	37	2	39507417	39507417	+	Silent	SNP	T	T	A	rs3755176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	178	186	0	1	0	T|0.326;A|0.674	0.674	strong	.	MAP4K3	109	.	NM_003618	exon23	c.A1710T	p.T570T	ACCTCTTGTATCT	.	PASS	Atlas-SNP
ZFP69B	65243	hgsc.bcm.edu	37	1	40923019	40923019	+	Missense_Mutation	SNP	G	G	A	rs2272994	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	34	161	0	0.317757	0	G|0.815;A|0.185	0.185	strong	.	.	.	.	NM_023070	exon4	c.G344A	p.C115Y	CAGGATGTCAGCT	.	PASS	Atlas-SNP
RFX5	5993	hgsc.bcm.edu	37	1	151315287	151315287	+	Missense_Mutation	SNP	G	G	C	rs2233854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	51	129	0	0.364286	0	G|0.896;C|0.104	0.104	strong	.	RFX5	69	.	NM_000449	exon11	c.C1226G	p.P409R	CCCCGGGGCTGAG	.	PASS	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28617485	28617485	+	Missense_Mutation	SNP	C	C	T	rs45543439	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	881	877	333	0	0.99546	0	C|0.083;T|0.917	0.917	strong	.	SULT1A1	53	.	NM_177534	exon6	c.G667A	p.V223M	GAACCACGAAGTC	.	PASS	Atlas-SNP
HEATR4	399671	hgsc.bcm.edu	37	14	73987627	73987627	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	401	4	395	0	0.00997506	0	.	.	none	HEATR4_ENST00000553558,NS,carcinoma,-1,2	HEATR4	126	2	NM_203309	exon3	c.G998A	p.R333H	ACCTGGCGAAAGT	.	scavenged	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40392360	40392360	+	Missense_Mutation	SNP	G	G	A	rs200977347		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	343	18	204	0	0.0524781	0	.	.	weak	FCGBP,rectum,carcinoma,0,1	FCGBP	416	1	NM_003890	exon16	c.C8144T	p.A2715V	CCAGCTGCCTGGC	.	scavenged	Atlas-SNP
WARS	7453	hgsc.bcm.edu	37	14	100808845	100808845	+	Silent	SNP	G	G	A	rs9453	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	199	166	0	0.995	0	G|0.333;A|0.667	0.667	strong	.	WARS	37	.	NM_004184	exon9	c.C1003T	p.L335L	AGTGCAGCAGGGC	.	PASS	Atlas-SNP
TRIM31	11074	hgsc.bcm.edu	37	6	30078275	30078275	+	Missense_Mutation	SNP	C	C	T	rs2523989	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	93	187	0	0.41704	0	C|0.898;T|0.102	0.102	strong	.	TRIM31	40	.	NM_007028	exon4	c.G694A	p.V232I	AATCAACGAGCTT	.	PASS	Atlas-SNP
ALKBH3	221120	hgsc.bcm.edu	37	11	43940602	43940602	+	Missense_Mutation	SNP	C	C	G	rs1130290	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	40	66	0	0.519481	0	C|0.827;G|0.173	0.173	strong	ALKBH3,NS,carcinoma,0,1	ALKBH3	33	1	NM_139178	exon9	c.C684G	p.D228E	TGGAGACTACACA	.	PASS	Atlas-SNP
AKAP11	11215	hgsc.bcm.edu	37	13	42873782	42873782	+	Silent	SNP	G	G	A	rs9525605	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	39	100	0	0.402062	0	G|0.960;A|0.040	0.040	strong	.	AKAP11	146	.	NM_016248	exon8	c.G900A	p.S300S	TTTTTCGTCTTCT	.	PASS	Atlas-SNP
TNC	3371	hgsc.bcm.edu	37	9	117846570	117846570	+	Silent	SNP	C	C	T	rs2274836	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	131	86	0	0.984962	0	C|0.552;T|0.448	0.448	strong	TNC,NS,malignant_melanoma,-2,1	TNC	282	1	NM_002160	exon4	c.G2049A	p.E683E	ACCAGGCTCCAGC	.	PASS	Atlas-SNP
MSLN	10232	hgsc.bcm.edu	37	16	813650	813650	+	Silent	SNP	G	G	A	rs3765319	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	36	66	0	0.493151	0	A|0.146;G|0.854;T|0.000	0.146	strong	.	MSLN	109	.	NM_005823	exon5	c.G138A	p.A46A	GGCTGCGCCCCTG	.	PASS	Atlas-SNP
PER1	5187	hgsc.bcm.edu	37	17	8053916	8053916	+	Missense_Mutation	SNP	G	G	A	rs72845601	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	63	101	0	0.480916	0	G|0.988;A|0.012	0.012	strong	.	PER1	104	.	NM_002616	exon2	c.C109T	p.P37S	GGCCTGGGCAAGG	.	PASS	Atlas-SNP
KIAA0895L	653319	hgsc.bcm.edu	37	16	67213950	67213950	+	Silent	SNP	G	G	A	rs61733768	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	82	157	0	0.476744	0	G|0.978;A|0.022	0.022	strong	.	KIAA0895L	32	.	NM_001040715	exon2	c.C564T	p.I188I	CTGATGGATGAAC	.	PASS	Atlas-SNP
PADI3	51702	hgsc.bcm.edu	37	1	17609448	17609448	+	Silent	SNP	G	G	T	rs2293920	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	64	175	0	0.438356	0	G|0.602;T|0.398	0.398	strong	.	PADI3	81	.	NM_016233	exon16	c.G1869T	p.P623P	GGAGCCGCTGGGC	.	PASS	Atlas-SNP
ZIC4	84107	hgsc.bcm.edu	37	3	147108756	147108756	+	Silent	SNP	C	C	G	rs17509456	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	19	11	49	0	0.578947	0	C|0.975;G|0.025	0.025	strong	ZIC4_ENST00000525172,NS,carcinoma,0,2	ZIC4	174	2	NM_001168378	exon4	c.G1116C	p.S372S	CGCCGCCGAGGAG	.	PASS	Atlas-SNP
TCEB3B	51224	hgsc.bcm.edu	37	18	44560038	44560038	+	Missense_Mutation	SNP	C	C	A	rs72921303	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	31	86	0	0.392405	0	C|0.988;A|0.012	0.012	strong	.	TCEB3B	141	.	NM_016427	exon1	c.G1598T	p.C533F	TGGGCACACTGCT	.	PASS	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	37	6	90372574	90372574	+	Missense_Mutation	SNP	A	A	C	rs36040566	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	246	110	275	0	0.447154	0	A|0.909;C|0.091	0.091	strong	.	MDN1	478	.	NM_014611	exon86	c.T14349G	p.D4783E	CTCCTCATCATCA	.	PASS	Atlas-SNP
ANO3	63982	hgsc.bcm.edu	37	11	26677947	26677947	+	Silent	SNP	C	C	T	rs10835051	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	195	173	0	1	0	C|0.448;N|0.000	.	strong	ANO3,right_upper_lobe,carcinoma,+2,1	ANO3	145	1	NM_031418	exon26	c.C2682T	p.P894P	CCCGCCCTGGAGT	.	PASS	Atlas-SNP
CCDC173	129881	hgsc.bcm.edu	37	2	170510651	170510651	+	Missense_Mutation	SNP	C	C	T	rs61741435	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	234	102	229	0	0.435897	0	C|0.960;T|0.040	0.040	strong	.	.	.	.	NM_001085447	exon6	c.G893A	p.R298K	AATTTTCTCATCT	.	PASS	Atlas-SNP
SLC46A2	57864	hgsc.bcm.edu	37	9	115652881	115652881	+	Silent	SNP	G	G	T	rs3802491	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	14	31	0	0.4375	0	G|0.667;T|0.333	0.333	strong	.	SLC46A2	30	.	NM_033051	exon1	c.C81A	p.A27A	GGACGAGGCCACC	.	PASS	Atlas-SNP
ENPP5	59084	hgsc.bcm.edu	37	6	46135489	46135489	+	Missense_Mutation	SNP	T	T	C	rs6926570	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	33	73	0	0.434211	0	C|0.421;N|0.000	0.421	strong	.	ENPP5	44	.	NM_021572	exon2	c.A511G	p.I171V	ATTCAATAATTTT	.	PASS	Atlas-SNP
SPTY2D1	144108	hgsc.bcm.edu	37	11	18633971	18633971	+	Silent	SNP	G	G	A	rs11605097	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	101	216	0	0.487923	0	G|0.668;A|0.332	0.332	strong	.	SPTY2D1	72	.	NM_194285	exon4	c.C1776T	p.D592D	ATCATCGTCATCT	.	PASS	Atlas-SNP
KLHL38	340359	hgsc.bcm.edu	37	8	124664167	124664167	+	Missense_Mutation	SNP	T	T	C	rs11784192	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	69	101	0	1	0	T|0.234;C|0.766	0.766	strong	.	KLHL38	81	.	NM_001081675	exon1	c.A1000G	p.I334V	CATAGATGCTGCG	.	PASS	Atlas-SNP
IRX2	153572	hgsc.bcm.edu	37	5	2749057	2749057	+	Missense_Mutation	SNP	C	C	A	rs76906087	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	7	7	7	0	1	0	C|0.891;A|0.109	0.109	strong	IRX2,NS,carcinoma,0,1	IRX2	60	1	NM_001134222	exon3	c.G765T	p.E255D	CTTGCACTCCGAG	.	PASS	Atlas-SNP
CHUK	1147	hgsc.bcm.edu	37	10	101964312	101964312	+	Silent	SNP	G	G	A	rs17880383	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	88	132	0	0.494382	0	G|0.953;A|0.047	0.047	strong	.	CHUK	71	.	NM_001278	exon13	c.C1458T	p.S486S	CTGAATGCTTTTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	51	95	0	0.593023	0	A|0.876;G|0.124	0.124	strong	.	EPX	95	.	NM_000502	exon2	c.A120G	p.I40M	CTGCATAGCAGAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	173	138	0	0.988571	0	G|0.411;A|0.589	0.589	strong	.	KRTAP13-4	46	.	NM_181600	exon1	c.G175A	p.A59T	GAGCCCGCCAGCT	.	PASS	Atlas-SNP
OR10H1	26539	hgsc.bcm.edu	37	19	15918802	15918802	+	Missense_Mutation	SNP	C	C	G	rs4808383	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	275	136	241	0	0.494545	0	C|0.832;G|0.168	0.168	strong	.	OR10H1	59	.	NM_013940	exon1	c.G46C	p.G16R	AGAAGCCGACGAG	.	PASS	Atlas-SNP
STK11IP	114790	hgsc.bcm.edu	37	2	220473355	220473355	+	Missense_Mutation	SNP	G	G	A	rs673951	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	280	141	285	0	0.503571	0	G|0.643;A|0.357	0.357	strong	.	STK11IP	152	.	NM_052902	exon15	c.G1687A	p.V563I	GAGGGCGTACGGG	.	PASS	Atlas-SNP
DMKN	93099	hgsc.bcm.edu	37	19	36003962	36003962	+	Missense_Mutation	SNP	T	T	C	rs7247001	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	44	59	0	0.571429	0	T|0.885;C|0.115	0.115	strong	.	DMKN	116	.	NM_001190347	exon1	c.A416G	p.N139S	GCACCATTGTGGC	.	PASS	Atlas-SNP
OR2T2	401992	hgsc.bcm.edu	37	1	248616764	248616764	+	Silent	SNP	C	C	T	rs77869864	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	329	21	541	0	0.0638298	0	C|0.500;T|0.500	0.500	strong	OR2T2,NS,carcinoma,0,1	OR2T2	73	1	NM_001004136	exon1	c.C666T	p.I222I	GCACATCCTCCTG	.	scavenged	Atlas-SNP
SLC16A13	201232	hgsc.bcm.edu	37	17	6943266	6943266	+	Silent	SNP	G	G	A	rs4796576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	76	77	0	1	0	G|0.412;A|0.588	0.588	strong	.	SLC16A13	28	.	NM_201566	exon4	c.G1266A	p.G422G	GGAGGGGCTGGAA	.	PASS	Atlas-SNP
ZNF415	55786	hgsc.bcm.edu	37	19	53612720	53612720	+	Missense_Mutation	SNP	T	T	C	rs1560099	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	63	142	0	0.4375	0	T|0.843;C|0.157	0.157	strong	.	ZNF415	68	.	NM_018355	exon4	c.A578G	p.Y193C	GTCCCATATTTAT	.	PASS	Atlas-SNP
CEBPB	1051	hgsc.bcm.edu	37	20	48808011	48808011	+	Silent	SNP	C	C	T	rs4253439	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	14	9	3	0	0.642857	0	C|0.638;T|0.362	0.362	strong	.	CEBPB	5	.	NM_005194	exon1	c.C441T	p.A147A	GGGGGCCGCCAAG	.	PASS	Atlas-SNP
OR52I1	390037	hgsc.bcm.edu	37	11	4615508	4615508	+	Silent	SNP	C	C	G	rs2010719	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	315	314	432	0	0.996825	0	C|0.416;G|0.584	0.584	strong	OR52I1,NS,carcinoma,+1,1	OR52I1	29	1	NM_001005169	exon1	c.C240G	p.S80S	CTCCTCCGTGGTA	.	PASS	Atlas-SNP
MAPK11	5600	hgsc.bcm.edu	37	22	50704028	50704028	+	Missense_Mutation	SNP	C	C	T	rs33932986	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	29	74	0	0.284314	0	C|0.985;T|0.015	0.015	strong	.	MAPK11	23	.	NM_002751	exon10	c.G824A	p.R275H	GCTCCACGGAAGA	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238249717	238249717	+	Silent	SNP	G	G	A	rs34558385	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	257	135	178	0	0.525292	0	G|0.929;A|0.071	0.071	strong	.	COL6A3	608	.	NM_004369	exon38	c.C7842T	p.S2614S	CACATCGCTCCCT	.	PASS	Atlas-SNP
DNASE2B	58511	hgsc.bcm.edu	37	1	84867610	84867610	+	Missense_Mutation	SNP	G	G	A	rs3754274	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	22	54	0	0.407407	0	G|0.773;A|0.227	0.227	strong	.	DNASE2B	40	.	NM_021233	exon2	c.G152A	p.R51K	CTAAAAGACAAAA	.	PASS	Atlas-SNP
GABRD	2563	hgsc.bcm.edu	37	1	1959699	1959699	+	Missense_Mutation	SNP	G	G	A	rs41307846	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	76	170	0	0.554745	0	G|0.985;A|0.015	0.015	strong	.	GABRD	49	.	NM_000815	exon6	c.G659A	p.R220H	GCTACCGCTTCAC	.	PASS	Atlas-SNP
GRAMD1B	57476	hgsc.bcm.edu	37	11	123480981	123480981	+	Silent	SNP	T	T	C	rs10893053	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	58	87	0	0.491525	0	T|0.767;C|0.233	0.233	strong	.	GRAMD1B	122	.	NM_020716	exon13	c.T1425C	p.H475H	CTACCATGACTAC	.	PASS	Atlas-SNP
ZNF280A	129025	hgsc.bcm.edu	37	22	22869548	22869548	+	Missense_Mutation	SNP	T	T	C	rs362011	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	39	79	0	0.527027	0	T|0.479;C|0.521	0.521	strong	.	ZNF280A	67	.	NM_080740	exon2	c.A407G	p.N136S	GAGTAATTGGGAG	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27702726	27702726	+	Silent	SNP	G	G	A	rs11015753	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	57	87	0	0.670588	0	G|0.786;A|0.214	0.214	strong	.	PTCHD3	140	.	NM_001034842	exon1	c.C454T	p.L152L	TGCCCAGCGCGGC	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75980112	75980112	+	Silent	SNP	A	A	G	rs4414463	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	84	184	0	0.47191	0	A|0.524;G|0.476	0.476	strong	.	CSPG4	175	.	NM_001897	exon3	c.T3294C	p.A1098A	ACGGTCAGCCCCT	.	PASS	Atlas-SNP
MYPN	84665	hgsc.bcm.edu	37	10	69934258	69934258	+	Missense_Mutation	SNP	C	C	G	rs3814182	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	81	180	0	0.424084	0	C|0.500;G|0.500	0.500	strong	.	MYPN	189	.	NM_032578	exon11	c.C2409G	p.S803R	CCCCAGCGGAAAC	.	PASS	Atlas-SNP
FASN	2194	hgsc.bcm.edu	37	17	80040450	80040450	+	Missense_Mutation	SNP	C	C	T	rs145688025	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	26	11	51	0	0.423077	0	C|0.997;T|0.003	0.003	strong	FASN,NS,carcinoma,0,1	FASN	154	1	NM_004104	exon34	c.G5872A	p.E1958K	CCGCCTCGGCAAT	.	PASS	Atlas-SNP
OR5AK2	390181	hgsc.bcm.edu	37	11	56756516	56756516	+	Missense_Mutation	SNP	G	G	C	rs12420424	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	301	142	300	0	0.471761	0	G|0.938;C|0.062	0.062	strong	.	OR5AK2	45	.	NM_001005323	exon1	c.G128C	p.S43T	GTAATAGTGGAAT	.	PASS	Atlas-SNP
SORBS1	10580	hgsc.bcm.edu	37	10	97174269	97174269	+	Silent	SNP	C	C	T	rs11188316	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	58	116	0	0.4	0	C|0.952;T|0.048	0.048	strong	.	SORBS1	185	.	NM_001034955	exon7	c.G792A	p.T264T	AGCTCCCGTGAGG	.	PASS	Atlas-SNP
PKP3	11187	hgsc.bcm.edu	37	11	403980	403980	+	Silent	SNP	G	G	A	rs11748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	94	71	0	0.979167	0	G|0.467;A|0.533	0.533	strong	.	PKP3	36	.	NM_007183	exon11	c.G2115A	p.P705P	GCTGCCGGGCAGC	.	PASS	Atlas-SNP
FABP9	646480	hgsc.bcm.edu	37	8	82370894	82370894	+	Silent	SNP	T	T	C	rs139486050	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	127	224	0	0.5	0	T|0.999;C|0.001	0.001	strong	.	FABP9	15	.	NM_001080526	exon3	c.A291G	p.K97K	AAGCCATTTTTGG	.	PASS	Atlas-SNP
ZNF416	55659	hgsc.bcm.edu	37	19	58084930	58084930	+	Silent	SNP	G	G	A	rs3746222	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	90	199	0	0.414747	0	G|0.828;A|0.172	0.172	strong	.	ZNF416	50	.	NM_017879	exon4	c.C342T	p.T114T	AATGTCGGTCAGG	.	PASS	Atlas-SNP
PPP1R15A	23645	hgsc.bcm.edu	37	19	49377918	49377918	+	Missense_Mutation	SNP	G	G	T	rs35087747	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	57	107	0	0.53271	0	A|0.000;C|0.000;G|0.864;T|0.136	0.136	strong	.	PPP1R15A	48	.	NM_014330	exon2	c.G1428T	p.R476S	CCAGAGGGCCCAC	.	PASS	Atlas-SNP
OR2J2	26707	hgsc.bcm.edu	37	6	29141849	29141849	+	Missense_Mutation	SNP	T	T	C	rs3116856	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	539	315	406	0	0.584416	0	T|0.566;C|0.434	0.434	strong	.	OR2J2	51	.	NM_030905	exon1	c.T437C	p.V146A	TGTTGGTTGCGGC	.	PASS	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	37	1	186276411	186276411	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250	6	179	7	0.024	0.0391061	.	.	none	PRG4,NS,malignant_melanoma,0,1	PRG4	259	1	NM_005807	exon7	c.G1560A	p.K520K	TCCCAAGGAGCCT	.	scavenged	Atlas-SNP
FBXO2	26232	hgsc.bcm.edu	37	1	11710561	11710561	+	Missense_Mutation	SNP	T	T	G	rs9614	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	40	63	0	0.606061	0	T|0.788;G|0.212	0.212	strong	.	FBXO2	25	.	NM_012168	exon2	c.A353C	p.K118T	CGCCGCTTGCTCA	.	PASS	Atlas-SNP
ADCY1	107	hgsc.bcm.edu	37	7	45701762	45701762	+	Silent	SNP	C	C	T	rs61729596	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	43	106	0	0.457447	0	C|0.986;T|0.014	0.014	strong	.	ADCY1	187	.	NM_021116	exon8	c.C1554T	p.F518F	AATGTTCAAGGCC	.	PASS	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	37	17	1637074	1637074	+	Silent	SNP	A	A	G	rs3809871	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	23	85	0	0.348485	0	A|0.448;G|0.552	0.552	strong	WDR81_ENST00000437219,NS,carcinoma,0,3	WDR81	180	3	NM_001163809	exon7	c.A4743G	p.P1581P	CGGACCACTGGGC	.	PASS	Atlas-SNP
COG1	9382	hgsc.bcm.edu	37	17	71192873	71192873	+	Silent	SNP	A	A	G	rs11544800	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	43	71	2	0.530864	0.028169	A|0.504;G|0.496	0.496	strong	COG1,NS,carcinoma,+2,1	COG1	46	1	NM_018714	exon2	c.A543G	p.A181A	GGTGGCAGCCGCC	.	scavenged	Atlas-SNP
CCDC159	126075	hgsc.bcm.edu	37	19	11465316	11465316	+	Missense_Mutation	SNP	G	G	C	rs6887	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	67	146	0	0.462069	0	G|0.619;C|0.381	0.381	strong	.	CCDC159	35	.	NM_001080503	exon10	c.G833C	p.C278S	CCGACTGTGACCA	.	PASS	Atlas-SNP
HHIPL1	84439	hgsc.bcm.edu	37	14	100129327	100129327	+	Silent	SNP	G	G	A	rs34890784	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	60	162	0	0.416667	0	G|0.944;A|0.056	0.056	strong	HHIPL1,NS,malignant_melanoma,+2,1	HHIPL1	86	1	NM_032425	exon6	c.G1617A	p.P539P	CTACCCGTACATC	.	PASS	Atlas-SNP
CARD10	29775	hgsc.bcm.edu	37	22	37900762	37900762	+	Silent	SNP	G	G	A	rs3817805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	46	71	0	0.567901	0	G|0.894;A|0.106	0.106	strong	.	CARD10	55	.	NM_014550	exon8	c.C1398T	p.S466S	GGAATGGGAGGAG	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70170222	70170222	+	Missense_Mutation	SNP	G	G	T	rs59034887	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	55	124	0	0.23913	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
NEK10	152110	hgsc.bcm.edu	37	3	27332820	27332820	+	Missense_Mutation	SNP	A	A	G	rs10510592	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	299	164	281	0	0.548495	0	A|0.824;G|0.176	0.176	strong	.	NEK10	271	.	NM_199347	exon19	c.T1538C	p.L513S	TATTTCAAAGGAG	.	PASS	Atlas-SNP
AKNAD1	254268	hgsc.bcm.edu	37	1	109391662	109391662	+	Missense_Mutation	SNP	G	G	C	rs11580913	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	12	32	0	0.285714	0	G|0.910;C|0.090	0.090	strong	AKNAD1,colon,carcinoma,0,1	AKNAD1	83	1	NM_152763	exon4	c.C1054G	p.L352V	TAGAGAGACTTGC	.	PASS	Atlas-SNP
NLRP8	126205	hgsc.bcm.edu	37	19	56473460	56473460	+	Silent	SNP	T	T	C	rs6509975	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	73	146	1	0.480263	0.00684932	C|0.330;N|0.000	0.330	strong	NLRP8_ENST00000291971,rectum,carcinoma,+1,2	NLRP8	225	2	NM_176811	exon4	c.T2070C	p.R690R	GCATCGTTGGTGG	.	scavenged	Atlas-SNP
NPC1	4864	hgsc.bcm.edu	37	18	21120444	21120444	+	Missense_Mutation	SNP	T	T	C	rs1805082	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	19	54	0	0.413043	0	T|0.533;C|0.467	0.467	strong	.	NPC1	114	.	NM_000271	exon17	c.A2572G	p.I858V	ATCCAATATCTAC	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79025592	79025592	+	Missense_Mutation	SNP	C	C	T	rs114648445	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	76	131	0	0.444444	0	C|0.997;T|0.003	0.003	strong	.	CMYA5	643	.	NM_153610	exon2	c.C1004T	p.T335I	ATGCCACATCTGC	.	PASS	Atlas-SNP
MEGF6	1953	hgsc.bcm.edu	37	1	3411235	3411235	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	17	51	0	0.607143	0	.	.	none	.	MEGF6	91	.	NM_001409	exon31	c.C3942T	p.H1314H	GCTGGCGTGGCAC	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104153004	104153004	+	Missense_Mutation	SNP	C	C	G	rs2271637	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	45	90	0	0.463918	0	C|0.734;G|0.266	0.266	strong	.	STAB2	370	.	NM_017564	exon65	c.C7201G	p.L2401V	ACGAGGCTGGGAA	.	PASS	Atlas-SNP
ST5	6764	hgsc.bcm.edu	37	11	8724191	8724191	+	Missense_Mutation	SNP	A	A	G	rs113126215	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	19	50	0	0.44186	0	A|0.996;G|0.004	0.004	strong	.	ST5	85	.	NM_005418	exon17	c.T2648C	p.V883A	TGGCGCACACTGA	.	PASS	Atlas-SNP
LIPA	3988	hgsc.bcm.edu	37	10	91007339	91007339	+	Missense_Mutation	SNP	C	C	T	rs1051339	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	33	73	0	0.464789	0	T|0.109;G|0.167	0.109	strong	.	LIPA	29	.	NM_000235	exon2	c.G67A	p.G23R	TCCCTCCAGACCC	.	PASS	Atlas-SNP
OR6M1	390261	hgsc.bcm.edu	37	11	123676231	123676231	+	Missense_Mutation	SNP	G	G	T	rs4936845	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	79	181	0	0.503185	0	G|0.763;T|0.237	0.237	strong	OR6M1,colon,carcinoma,0,1	OR6M1	60	1	NM_001005325	exon1	c.C827A	p.T276K	ACCACTGTGATGA	.	PASS	Atlas-SNP
GPR55	9290	hgsc.bcm.edu	37	2	231774844	231774844	+	Silent	SNP	G	G	A	rs2396777	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	61	126	0	0.495935	0	G|0.690;N|0.000	.	strong	GPR55,NS,carcinoma,0,1	GPR55	46	1	NM_005683	exon2	c.C834T	p.N278N	GTTGACGTTGGAG	.	PASS	Atlas-SNP
ADAM28	10863	hgsc.bcm.edu	37	8	24171051	24171051	+	Silent	SNP	C	C	T	rs6996616	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	139	206	0	0.558233	0	C|0.809;T|0.191	0.191	strong	.	ADAM28	100	.	NM_014265	exon6	c.C534T	p.H178H	GGCCCACGATTTG	.	PASS	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	37	19	47572395	47572395	+	Silent	SNP	C	C	T	rs202116030	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	17	54	0	0.377778	0	C|1.000;T|0.000	0.000	strong	.	ZC3H4	96	.	NM_015168	exon14	c.G2352A	p.A784A	CCTCCTCGCTCTC	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19181393	19181393	+	Missense_Mutation	SNP	T	T	C	rs35874116	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	43	94	0	0.5	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
PHLDB1	23187	hgsc.bcm.edu	37	11	118514625	118514625	+	Silent	SNP	C	C	T	rs11216938	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	44	81	0	0.415094	0	C|0.822;T|0.178	0.178	strong	PHLDB1,rectum,carcinoma,0,1	PHLDB1	103	1	NM_001144758	exon14	c.C2985T	p.S995S	GCTCAGCGTGGCT	.	PASS	Atlas-SNP
CYP3A7	1551	hgsc.bcm.edu	37	7	99306685	99306685	+	Missense_Mutation	SNP	C	C	G	rs2257401	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	236	235	245	0	0.995763	0	C|0.254;G|0.746	0.746	strong	.	CYP3A7	59	.	NM_000765	exon11	c.G1226C	p.R409T	GGCTCTCTCCAGT	.	PASS	Atlas-SNP
SLC6A5	9152	hgsc.bcm.edu	37	11	20648380	20648380	+	Missense_Mutation	SNP	G	G	A	rs1805091	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	45	76	0	0.48913	0	G|0.790;A|0.210	0.210	strong	SLC6A5,caecum,carcinoma,0,1	SLC6A5	151	1	NM_004211	exon8	c.G1387A	p.D463N	CTCACGGATGCCA	.	PASS	Atlas-SNP
PEX6	5190	hgsc.bcm.edu	37	6	42932200	42932200	+	Missense_Mutation	SNP	G	G	T	rs1129187	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	67	148	0	0.426752	0	G|0.617;T|0.383	0.383	strong	PEX6,colon,carcinoma,0,1	PEX6	44	1	NM_000287	exon17	c.C2816A	p.P939Q	CTACCTGGCTCCA	.	PASS	Atlas-SNP
NME8	51314	hgsc.bcm.edu	37	7	37934146	37934146	+	Missense_Mutation	SNP	T	T	C	rs56128139	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	257	112	257	0	0.435798	0	T|0.761;C|0.239	0.239	strong	.	.	.	.	NM_016616	exon16	c.T1478C	p.I493T	AGCAAATAGAGAA	.	PASS	Atlas-SNP
ZNF697	90874	hgsc.bcm.edu	37	1	120166453	120166453	+	Silent	SNP	G	G	C	rs76236163	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	28	97	0	0.528302	0	G|0.949;C|0.051	0.051	strong	.	ZNF697	26	.	NM_001080470	exon3	c.C513G	p.A171A	GTCCACGGCCATG	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501762	501762	+	Missense_Mutation	SNP	A	A	C	rs200007467		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	75	164	5	0.336323	0.0304878	.	.	weak	MADCAM1,NS,carcinoma,0,1	MADCAM1	29	1	NM_130760	exon4	c.A761C	p.Q254P	CCTCCCAGGAGCC	.	scavenged	Atlas-SNP
LSMD1	84316	hgsc.bcm.edu	37	17	7760704	7760704	+	Missense_Mutation	SNP	A	A	G	rs8522	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	56	146	0	0.397163	0	A|0.678;G|0.322	0.322	strong	.	LSMD1	8	.	NM_032356	exon1	c.T38C	p.L13P	AACCCCAGCACTG	.	PASS	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	37	4	57180473	57180473	+	Missense_Mutation	SNP	C	C	A	rs6823339	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	48	91	0	0.489796	0	C|0.703;A|0.297	0.297	strong	.	KIAA1211	178	.	NM_020722	exon8	c.C805A	p.L269I	CAGGAGCTCTTGG	.	PASS	Atlas-SNP
KIAA1751	85452	hgsc.bcm.edu	37	1	1900186	1900186	+	Missense_Mutation	SNP	T	T	C	rs35269416	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	84	186	0	0.488372	0	T|0.833;C|0.167	0.167	strong	.	KIAA1751	92	.	NM_001080484	exon11	c.A1133G	p.K378R	TGCTGTTTCTTCC	.	PASS	Atlas-SNP
CYP2C19	1557	hgsc.bcm.edu	37	10	96602622	96602622	+	Silent	SNP	C	C	T	rs3758580	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	88	194	0	0.483516	0	C|0.826;T|0.174	0.174	strong	CYP2C19,colon,carcinoma,0,1	CYP2C19	88	1	NM_000769	exon7	c.C990T	p.V330V	ACGTGTCGTTGGC	.	PASS	Atlas-SNP
OR8B3	390271	hgsc.bcm.edu	37	11	124266927	124266927	+	Silent	SNP	A	A	G	rs142812088		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	339	22	309	17	0.0648968	0.0550162	A|1.000;G|0.000	0.000	weak	OR8B3,NS,carcinoma,0,1	OR8B3	36	1	NM_001005467	exon1	c.T321C	p.F107F	GATGACAAAAAAG	.	scavenged	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50533463	50533463	+	Missense_Mutation	SNP	T	T	A	rs10857470	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	62	91	0	0.574074	0	T|0.906;A|0.094	0.094	strong	.	C10orf71	179	.	NM_001135196	exon3	c.T2873A	p.F958Y	GGAATTTCCCATC	.	PASS	Atlas-SNP
SLC6A12	6539	hgsc.bcm.edu	37	12	319111	319111	+	Silent	SNP	T	T	C	rs526690	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	132	178	0	0.963504	0	T|0.434;C|0.566	0.566	strong	.	SLC6A12	60	.	NM_001122848	exon3	c.A42G	p.A14A	GGAGACTGCAGGA	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2833628	2833628	+	Silent	SNP	A	A	C	rs373216270	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	20	120	0	0.229885	0	.	.	weak	.	ARSD	47	.	NM_001669	exon6	c.T969G	p.G323G	ATTATCACCATAT	.	PASS	Atlas-SNP
ZNF490	57474	hgsc.bcm.edu	37	19	12692001	12692001	+	Silent	SNP	G	G	A	rs3745651	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	34	36	0	0.607143	0	G|0.688;A|0.312	0.312	strong	.	ZNF490	42	.	NM_020714	exon5	c.C888T	p.H296H	CCTTTCGTGGGTT	.	PASS	Atlas-SNP
MAN2B1	4125	hgsc.bcm.edu	37	19	12772090	12772090	+	Missense_Mutation	SNP	C	C	T	rs1133330	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	72	149	0	0.470588	0	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
PDE2A	5138	hgsc.bcm.edu	37	11	72289291	72289291	+	Silent	SNP	T	T	C	rs1135029	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	61	113	0	0.480315	0	T|0.638;C|0.362	0.362	strong	PDE2A,caecum,carcinoma,-1,2	PDE2A	156	2	NM_002599	exon30	c.A2601G	p.A867A	GGGCATTGCAATG	.	PASS	Atlas-SNP
CCL14	6358	hgsc.bcm.edu	37	17	34311387	34311387	+	Missense_Mutation	SNP	T	T	C	rs16971802	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	75	124	0	0.480769	0	T|0.925;C|0.075	0.075	strong	.	CCL14	22	.	NM_032962	exon3	c.A229G	p.K77E	CGGGCTTGGAGCA	.	PASS	Atlas-SNP
IP6K2	51447	hgsc.bcm.edu	37	3	48732480	48732480	+	Missense_Mutation	SNP	T	T	C	rs17080319	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	44	99	0	0.52381	0	A|0.000;C|0.134;T|0.866	0.134	strong	.	IP6K2	63	.	NM_001190317	exon3	c.A419G	p.D140G	CTCACATCTCCTC	.	PASS	Atlas-SNP
ZNF180	7733	hgsc.bcm.edu	37	19	44981375	44981375	+	Silent	SNP	T	T	C	rs954314	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	139	169	0	1	0	T|0.760;C|0.240	0.240	strong	ZNF180,caecum,carcinoma,0,1	ZNF180	103	1	NM_013256	exon5	c.A1323G	p.Q441Q	TCCACATTGATTG	.	PASS	Atlas-SNP
HIST1H4H	8365	hgsc.bcm.edu	37	6	26285560	26285560	+	Silent	SNP	A	A	G	rs2393592	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	267	144	170	0	0.539326	0	A|0.445;G|0.555	0.555	strong	.	HIST1H4H	16	.	NM_003543	exon1	c.T168C	p.R56R	AACACCACGAGTC	.	PASS	Atlas-SNP
NOTCH2	4853	hgsc.bcm.edu	37	1	120458122	120458122	+	Missense_Mutation	SNP	A	A	T	rs35586704	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	73	129	0	0.58871	0	A|0.998;T|0.002	0.002	strong	.	NOTCH2	348	.	NM_024408	exon34	c.T7223A	p.L2408H	CCCTGGAGGTGAC	.	PASS	Atlas-SNP
XIRP1	165904	hgsc.bcm.edu	37	3	39228774	39228774	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	39	115	0	0.371429	0	.	.	none	.	XIRP1	173	.	NM_001198621	exon2	c.C2163T	p.P721P	ACCCGCGGGGATG	.	PASS	Atlas-SNP
FAM170B	170370	hgsc.bcm.edu	37	10	50339925	50339925	+	Silent	SNP	G	G	A	rs12765281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	49	56	0	1	0	G|0.768;A|0.232	0.232	strong	.	FAM170B	20	.	NM_001164484	exon2	c.C585T	p.D195D	CAGCCAGTCCGGC	.	PASS	Atlas-SNP
WRN	7486	hgsc.bcm.edu	37	8	30973957	30973957	+	Silent	SNP	G	G	T	rs1800392	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	52	122	0	0.45614	0	G|0.509;T|0.491	0.491	strong	.	WRN	116	.	NM_000553	exon20	c.G2361T	p.L787L	GAAACTGAATCTA	.	PASS	Atlas-SNP
PQLC2	54896	hgsc.bcm.edu	37	1	19652874	19652874	+	Missense_Mutation	SNP	G	G	A	rs41264079	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	12	53	0	0.4	0	G|0.938;A|0.062	0.062	strong	PQLC2,NS,carcinoma,0,2	PQLC2	34	2	NM_001040125	exon5	c.G518A	p.G173D	AGTCGGGCAGCAA	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31600430	31600430	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	91	132	0	0.583333	0	.	.	none	.	PRRC2A	152	.	NM_004638	exon16	c.G3980A	p.S1327N	CAGAGAGCAGTGA	.	PASS	Atlas-SNP
PPP1R15A	23645	hgsc.bcm.edu	37	19	49377873	49377873	+	Silent	SNP	G	G	A	rs35023389	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	53	131	0	0.495327	0	G|0.860;A|0.140	0.140	strong	.	PPP1R15A	48	.	NM_014330	exon2	c.G1383A	p.L461L	AGCCTTGGGAGAA	.	PASS	Atlas-SNP
ASB2	51676	hgsc.bcm.edu	37	14	94405616	94405616	+	Silent	SNP	G	G	A	rs140791740	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	44	105	0	0.453608	0	G|1.000;A|0.000	0.000	strong	.	ASB2	71	.	NM_001202429	exon8	c.C1455T	p.A485A	CTTCATGGCGAAC	.	PASS	Atlas-SNP
CES1	1066	hgsc.bcm.edu	37	16	55862691	55862691	+	Missense_Mutation	SNP	G	G	A	rs62028647	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	31	124	0	0.254098	0	G|0.622;A|0.378	0.378	strong	.	CES1	78	.	NM_001025195	exon2	c.C248T	p.S83L	GGGTACGAGGTGG	.	PASS	Atlas-SNP
LRRFIP2	9209	hgsc.bcm.edu	37	3	37151157	37151157	+	Missense_Mutation	SNP	T	T	C	rs36068826	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	47	122	0	0.394958	0	T|0.980;C|0.020	0.020	strong	.	LRRFIP2	71	.	NM_006309	exon11	c.A551G	p.Y184C	CTCTTATATGTTG	.	PASS	Atlas-SNP
TRIP12	9320	hgsc.bcm.edu	37	2	230668858	230668858	+	Silent	SNP	T	T	C	rs13018957	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	128	218	0	0.463768	0	T|0.611;C|0.389	0.389	strong	TRIP12,NS,carcinoma,0,1	TRIP12	207	1	NM_004238	exon18	c.A2511G	p.T837T	AAATAATGTCTTA	.	PASS	Atlas-SNP
KIF15	56992	hgsc.bcm.edu	37	3	44871505	44871505	+	Missense_Mutation	SNP	A	A	T	rs11710339	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	84	148	0	0.575342	0	A|0.868;T|0.132	0.132	strong	.	KIF15	103	.	NM_020242	exon25	c.A2986T	p.T996S	CTAAGAACATCGG	.	PASS	Atlas-SNP
ZSCAN20	7579	hgsc.bcm.edu	37	1	33957130	33957130	+	Silent	SNP	C	C	A	rs3795419	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	44	106	0	0.571429	0	C|0.824;A|0.176	0.176	strong	ZSCAN20,NS,carcinoma,0,1	ZSCAN20	107	1	NM_145238	exon6	c.C1272A	p.A424A	AGAGGCCGTGGCA	.	PASS	Atlas-SNP
NLRP13	126204	hgsc.bcm.edu	37	19	56423728	56423728	+	Silent	SNP	A	A	G	rs303999	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	61	87	0	0.544643	0	A|0.367;G|0.633	0.633	strong	.	NLRP13	220	.	NM_176810	exon5	c.T1455C	p.S485S	GGCCAGACTGCAG	.	PASS	Atlas-SNP
KDM3A	55818	hgsc.bcm.edu	37	2	86705072	86705072	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	297	3	268	0	0.010101	0	.	.	none	KDM3A_ENST00000409556,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,2	KDM3A	179	2	NM_001146688	exon13	c.A2012G	p.N671S	TCTTCAACCTGCA	.	scavenged	Atlas-SNP
JAKMIP3	282973	hgsc.bcm.edu	37	10	133918420	133918420	+	Silent	SNP	G	G	A	rs11146177	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	76	143	0	0.469136	0	G|0.837;A|0.163	0.163	strong	.	JAKMIP3	69	.	NM_001105521	exon1	c.G108A	p.Q36Q	CATCCAGATCGAG	.	PASS	Atlas-SNP
RPS6KA1	6195	hgsc.bcm.edu	37	1	26883511	26883511	+	Missense_Mutation	SNP	A	A	C	rs2229712	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	43	96	0	0.558442	0	A|0.833;C|0.167	0.167	strong	.	RPS6KA1	65	.	NM_001006665	exon12	c.A1031C	p.K344T	AGATCAAGCCACC	.	PASS	Atlas-SNP
TRPM5	29850	hgsc.bcm.edu	37	11	2432964	2432964	+	Silent	SNP	T	T	C	rs2074234	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	30	149	0	0.337079	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
ARAP3	64411	hgsc.bcm.edu	37	5	141059158	141059158	+	Missense_Mutation	SNP	C	C	G	rs1031904	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	55	145	0	0.364238	0	C|0.908;G|0.092	0.092	strong	.	ARAP3	139	.	NM_022481	exon4	c.G652C	p.D218H	TTCTGTCGGGGGC	.	PASS	Atlas-SNP
ZNF20	7568	hgsc.bcm.edu	37	19	12244656	12244656	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	112	171	0	0.533333	0	.	.	none	.	ZNF20	86	.	NM_021143	exon4	c.G345A	p.T115T	ATGACCCGTGCCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513772	195513772	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	267	18	243	0	0.0674157	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.C4679T	p.S1560L	GATACTGAGGAAG	.	PASS	Atlas-SNP
DDX23	9416	hgsc.bcm.edu	37	12	49230035	49230035	+	Silent	SNP	T	T	G	rs1057908	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	108	193	0	0.484305	0	T|0.526;G|0.474	0.474	strong	.	DDX23	82	.	NM_004818	exon11	c.A1251C	p.I417I	ACGCTGTATAGGT	.	PASS	Atlas-SNP
MMD2	221938	hgsc.bcm.edu	37	7	4959807	4959807	+	Silent	SNP	G	G	A	rs932061	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	39	18	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
TUBGCP6	85378	hgsc.bcm.edu	37	22	50660064	50660064	+	Silent	SNP	C	C	T	rs140491142	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	89	226	1	0.404545	0.00442478	C|0.999;T|0.001	0.001	strong	TUBGCP6,NS,carcinoma,0,1	TUBGCP6	132	1	NM_020461	exon16	c.G2724A	p.P908P	CACGGACGGCTCA	.	scavenged	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56203891	56203891	+	Silent	SNP	G	G	T	rs3809978	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	104	147	0	1	0	T|0.684;G|0.316;A|0.000	0.684	strong	.	ALPK2	487	.	NM_052947	exon5	c.C3528A	p.P1176P	GCTTGCGGGTGAG	.	PASS	Atlas-SNP
CBLB	868	hgsc.bcm.edu	37	3	105439026	105439026	+	Silent	SNP	G	G	A	rs2305035	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	75	166	0	0.443787	0	G|0.787;A|0.213	0.213	strong	.	CBLB	118	.	NM_170662	exon10	c.C1272T	p.D424D	AAAGGGGTCCACG	.	PASS	Atlas-SNP
COL6A2	1292	hgsc.bcm.edu	37	21	47545913	47545913	+	Silent	SNP	G	G	A	rs2839114	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	62	140	0	0.418919	0	G|0.690;A|0.310	0.310	strong	.	COL6A2	351	.	NM_058175	exon26	c.G2184A	p.V728V	TGCGGTGGTCATC	.	PASS	Atlas-SNP
OR5M11	219487	hgsc.bcm.edu	37	11	56310222	56310222	+	Missense_Mutation	SNP	C	C	T	rs628524	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	37	107	0	0.430233	0	T|0.660;G|0.007	0.660	strong	.	OR5M11	60	.	NM_001005245	exon1	c.G512A	p.S171N	ATGACACTGGATC	.	PASS	Atlas-SNP
AGRN	375790	hgsc.bcm.edu	37	1	984302	984302	+	Silent	SNP	T	T	C	rs9442391	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	67	135	0	1	0	T|0.431;C|0.569	0.569	strong	.	AGRN	110	.	NM_198576	exon24	c.T4161C	p.T1387T	CCCCACTCTCCGC	.	PASS	Atlas-SNP
TRAK2	66008	hgsc.bcm.edu	37	2	202252539	202252539	+	Missense_Mutation	SNP	G	G	A	rs2244438	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	196	203	1	0.989899	0.00492611	G|0.722;A|0.278	0.278	strong	.	TRAK2	62	.	NM_015049	exon13	c.C1583T	p.T528I	CTCTCTGTCGGGG	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150946436	150946436	+	Missense_Mutation	SNP	A	A	G	rs9324700	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	76	191	0	0.347032	0	A|0.534;G|0.466	0.466	strong	.	FAT2	465	.	NM_001447	exon1	c.T2057C	p.F686S	CCAATAAAGTGGA	.	PASS	Atlas-SNP
PTPRD	5789	hgsc.bcm.edu	37	9	8518052	8518052	+	Missense_Mutation	SNP	G	G	C	rs10977171	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	274	92	342	1	0.335766	0.00292398	G|0.951;C|0.049	0.049	strong	PTPRD,NS,carcinoma,0,1	PTPRD	1348	1	NM_130392	exon10	c.C1339G	p.Q447E	GGATCTGTCCATT	.	PASS	Atlas-SNP
SEMA5B	54437	hgsc.bcm.edu	37	3	122642590	122642590	+	Silent	SNP	G	G	A	rs2276778	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	53	86	0	0.53	0	G|0.514;A|0.486	0.486	strong	.	SEMA5B	303	.	NM_001256347	exon10	c.C1308T	p.I436I	AGCCGCGATGCTG	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2836211	2836211	+	Missense_Mutation	SNP	A	A	T	rs73632977	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	52	181	0	0.422764	0	A|0.913;T|0.087	0.087	strong	.	ARSD	47	.	NM_001669	exon5	c.T497A	p.L166Q	TGGTTCAGGGGGT	.	PASS	Atlas-SNP
LY6D	8581	hgsc.bcm.edu	37	8	143867905	143867905	+	Missense_Mutation	SNP	C	C	T	rs2572925	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	122	124	1	0.96063	0.00806452	C|0.637;T|0.363	0.363	strong	.	LY6D	10	.	NM_003695	exon1	c.G28A	p.A10T	CCAGGGCTGCAAG	.	PASS	Atlas-SNP
QRICH2	84074	hgsc.bcm.edu	37	17	74290008	74290008	+	Missense_Mutation	SNP	G	G	T	rs62621822	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	50	80	0	0.454545	0	G|0.982;T|0.018	0.018	strong	.	QRICH2	143	.	NM_032134	exon4	c.C302A	p.P101Q	ATACTTGGTTGCT	.	PASS	Atlas-SNP
NRXN3	9369	hgsc.bcm.edu	37	14	79270093	79270093	+	Silent	SNP	G	G	A	rs2288140	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	48	78	0	0.5	0	G|0.920;A|0.080	0.080	strong	NRXN3,colon,carcinoma,+1,1	NRXN3	342	1	NM_004796	exon6	c.G1056A	p.T352T	GGCTACGACCTCC	.	PASS	Atlas-SNP
TMA16	55319	hgsc.bcm.edu	37	4	164435265	164435265	+	Missense_Mutation	SNP	A	A	C	rs2304802	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	34	72	0	0.447368	0	C|0.418;N|0.000	0.418	strong	C4orf43,NS,carcinoma,0,2	.	.	2	NM_018352	exon4	c.A194C	p.Q65P	ATCCCCAAAAAAA	.	PASS	Atlas-SNP
SIPA1L2	57568	hgsc.bcm.edu	37	1	232596728	232596728	+	Silent	SNP	G	G	A	rs74807360	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	57	152	0	0.410072	0	G|0.947;A|0.053	0.053	strong	.	SIPA1L2	218	.	NM_020808	exon8	c.C3000T	p.A1000A	CAGAGTGGCCACG	.	PASS	Atlas-SNP
CYP19A1	1588	hgsc.bcm.edu	37	15	51529112	51529112	+	Silent	SNP	T	T	C	rs700518	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	141	136	0	0.992958	0	T|0.612;C|0.388	0.388	strong	CYP19A1,NS,adenoma,0,2	CYP19A1	75	2	NM_031226	exon4	c.A240G	p.V80V	TCCATATACCCGG	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42162713	42162713	+	Silent	SNP	G	G	A	rs61753871	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	32	97	0	0.390244	0	G|0.968;A|0.032	0.032	strong	.	SPTBN5	171	.	NM_016642	exon30	c.C5388T	p.H1796H	GAGCGCGTGGCCT	.	PASS	Atlas-SNP
MRGPRX3	117195	hgsc.bcm.edu	37	11	18159669	18159669	+	Nonsense_Mutation	SNP	G	G	A	rs78408237	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	127	104	0	1	0	G|0.948;A|0.052	0.052	strong	.	MRGPRX3	59	.	NM_054031	exon3	c.G920A	p.W307X	GAGGGTGGCTTCC	.	PASS	Atlas-SNP
CATSPER3	347732	hgsc.bcm.edu	37	5	134345062	134345062	+	Missense_Mutation	SNP	A	A	G	rs72800379	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	61	74	0	0.635417	0	A|0.998;G|0.002	0.002	strong	.	CATSPER3	38	.	NM_178019	exon6	c.A818G	p.D273G	TCTAGGACTCCAT	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536472	88536472	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	293	21	264	0	0.0716724	0	.	.	none	.	DSPP	174	.	NM_014208	exon5	c.C2658T	p.N886N	CAGCAACGAAAGC	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20296010	20296010	+	Missense_Mutation	SNP	G	G	C	rs17114261	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	429	205	395	1	0.477855	0.00253165	G|0.824;C|0.176	0.176	strong	.	OR4N2	125	.	NM_001004723	exon1	c.G403C	p.V135L	CCTACTGTCATGA	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177902387	177902387	+	Missense_Mutation	SNP	C	C	A	rs61745560	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	60	84	0	0.530973	0	C|0.774;A|0.226	0.226	strong	.	SEC16B	92	.	NM_033127	exon22	c.G2785T	p.A929S	CTCCAGCGGGGGA	.	PASS	Atlas-SNP
HIST3H3	8290	hgsc.bcm.edu	37	1	228612838	228612838	+	Silent	SNP	G	G	T	rs2230656	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	166	157	0	1	0	G|0.291;T|0.709	0.709	strong	.	HIST3H3	20	.	NM_003493	exon1	c.C189A	p.I63I	CTTGCGGATTAGC	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28507644	28507644	+	Missense_Mutation	SNP	C	C	G	rs180743	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	34	62	0	0.515152	0	C|0.698;G|0.302	0.302	strong	APOBR,NS,carcinoma,0,1	APOBR	89	1	NM_018690	exon2	c.C1282G	p.P428A	AAACAGCCCCAGG	.	PASS	Atlas-SNP
ABCB4	5244	hgsc.bcm.edu	37	7	87082292	87082292	+	Silent	SNP	G	G	A	rs1202283	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	56	76	0	0.466667	0	G|0.614;A|0.386	0.386	strong	.	ABCB4	177	.	NM_018850	exon6	c.C504T	p.N168N	GGTGTCGTTGATG	.	PASS	Atlas-SNP
MYOM2	9172	hgsc.bcm.edu	37	8	2054171	2054171	+	Silent	SNP	C	C	T	rs3817705	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	92	94	0	0.989247	0	C|0.707;T|0.293	0.293	strong	.	MYOM2	251	.	NM_003970	exon22	c.C2874T	p.I958I	TAAAATCGAAACC	.	PASS	Atlas-SNP
ALOX12	239	hgsc.bcm.edu	37	17	6902743	6902743	+	Silent	SNP	G	G	A	rs1042356	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	78	199	0	0.484472	0	G|0.402;A|0.598	0.598	strong	.	ALOX12	49	.	NM_000697	exon6	c.G765A	p.S255S	GCCCTCGGGGATG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515134	195515134	+	Missense_Mutation	SNP	G	G	T	rs374418206		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	19	361	1	0.0926829	0.00277008	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,5	MUC4	1505	5	NM_018406	exon2	c.C3317A	p.P1106H	GTGACAGGAAGAG	.	scavenged	Atlas-SNP
QRFPR	84109	hgsc.bcm.edu	37	4	122301595	122301595	+	Missense_Mutation	SNP	C	C	A	rs55693553	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	94	159	0	0.522222	0	C|0.987;A|0.013	0.013	strong	.	QRFPR	65	.	NM_198179	exon1	c.G208T	p.V70L	GGGTCACCACGTA	.	PASS	Atlas-SNP
IL1RN	3557	hgsc.bcm.edu	37	2	113887207	113887207	+	Silent	SNP	T	T	C	rs419598	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	48	131	0	0.417391	0	T|0.816;C|0.184	0.184	strong	.	IL1RN	30	.	NM_173841	exon4	c.T180C	p.A60A	AGTTGCTGGATAC	.	PASS	Atlas-SNP
WDR74	54663	hgsc.bcm.edu	37	11	62602983	62602983	+	Silent	SNP	A	A	G	rs2298636	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	73	122	0	0.493243	0	A|0.902;G|0.098	0.098	strong	.	WDR74	36	.	NM_018093	exon7	c.T538C	p.L180L	CCCGCAAGTCCAG	.	PASS	Atlas-SNP
GOLIM4	27333	hgsc.bcm.edu	37	3	167747707	167747707	+	Missense_Mutation	SNP	C	C	T	rs140974195	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	40	116	0	0.338983	0	C|0.998;T|0.002	0.002	strong	.	GOLIM4	71	.	NM_014498	exon10	c.G1294A	p.E432K	AAGCTTCCTGGTG	.	PASS	Atlas-SNP
DDX39B	7919	hgsc.bcm.edu	37	6	31503219	31503219	+	Silent	SNP	G	G	A	rs55799418	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	53	94	0	0.509615	0	G|0.993;A|0.007	0.007	strong	.	DDX39B	38	.	NM_004640	exon6	c.C660T	p.H220H	CTTCTCGTGGGGG	.	PASS	Atlas-SNP
PARP8	79668	hgsc.bcm.edu	37	5	50057729	50057729	+	Silent	SNP	G	G	A	rs282547	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	83	174	0	0.44385	0	T|0.010;G|0.455;A|0.534	0.534	strong	.	PARP8	93	.	NM_001178056	exon6	c.G420A	p.G140G	CGGAGGGCAGGTA	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41244435	41244435	+	Missense_Mutation	SNP	T	T	C	rs16941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	112	213	0	0.523364	0	T|0.716;C|0.284	0.284	strong	.	BRCA1	304	.	NM_007300	exon10	c.A3113G	p.E1038G	CTGGCTTCTTTAA	.	PASS	Atlas-SNP
OSBPL6	114880	hgsc.bcm.edu	37	2	179201048	179201048	+	Silent	SNP	G	G	T	rs16866263	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	33	47	0	0.5	0	G|0.955;T|0.045	0.045	strong	OSBPL6_ENST00000392505,mucosal,malignant_melanoma,+2,2	OSBPL6	178	2	NM_001201482	exon9	c.G678T	p.P226P	CTTTCCGTGGCAG	.	PASS	Atlas-SNP
AHRR	57491	hgsc.bcm.edu	37	5	422955	422955	+	Missense_Mutation	SNP	C	C	G	rs2292596	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	71	105	0	0.645455	0	C|0.670;G|0.330	0.330	strong	AHRR,brain,glioma,0,2	AHRR	67	2	NM_001242412	exon6	c.C565G	p.P189A	GGGCAGCCCCCGC	.	PASS	Atlas-SNP
MREG	55686	hgsc.bcm.edu	37	2	216878008	216878008	+	Missense_Mutation	SNP	C	C	G	rs1864253	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	117	252	1	0.991525	0.00396825	C|0.317;G|0.683	0.683	strong	MREG,NS,carcinoma,0,2	MREG	10	2	NM_018000	exon1	c.G43C	p.G15R	CGCACCCGCAGCA	.	PASS	Atlas-SNP
NMB	4828	hgsc.bcm.edu	37	15	85200520	85200520	+	Missense_Mutation	SNP	G	G	T	rs1051168	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	78	121	0	0.553191	0	G|0.833;T|0.167	0.167	strong	.	NMB	14	.	NM_205858	exon2	c.C217A	p.P73T	TGTGGGGAGCTGT	.	PASS	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	37	3	46007823	46007823	+	Missense_Mutation	SNP	G	G	T	rs71622515	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	62	194	0	0.389937	0	GTT|0.500;TTC|0.500	.	alt	.	FYCO1	115	.	NM_024513	exon8	c.C3003A	p.N1001K	GAGGGTGTTGAGC	.	PASS	Atlas-SNP
KRT40	125115	hgsc.bcm.edu	37	17	39135089	39135089	+	Missense_Mutation	SNP	G	G	A	rs11649834	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	93	82	0	1	0	G|0.922;A|0.078	0.078	strong	.	KRT40	27	.	NM_182497	exon8	c.C1163T	p.T388M	CAGTACGTGTTGA	.	PASS	Atlas-SNP
ZNF468	90333	hgsc.bcm.edu	37	19	53352388	53352388	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	5	58	2	0.1	0.0344828	.	.	none	ZNF468,colon,carcinoma,0,1	ZNF468	46	1	NM_001008801	exon3	c.T94C	p.L32L	TGTATAAAGTCCT	.	scavenged	Atlas-SNP
AGAP11	119385	hgsc.bcm.edu	37	10	88768423	88768423	+	Silent	SNP	A	A	G	rs2641562	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224	113	193	0	0.504464	0	A|0.567;G|0.433	0.433	strong	.	.	.	.	NM_133447	exon12	c.A414G	p.T138T	GAAGACATGGAAA	.	PASS	Atlas-SNP
TRIM69	140691	hgsc.bcm.edu	37	15	45047134	45047134	+	Missense_Mutation	SNP	G	G	A	rs2470911	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	91	185	0	0.486631	0	G|0.361;A|0.639	0.639	strong	.	TRIM69	47	.	NM_182985	exon2	c.G43A	p.D15N	CCAGGCGACTATG	.	PASS	Atlas-SNP
TMEM173	340061	hgsc.bcm.edu	37	5	138861146	138861146	+	Silent	SNP	C	C	G	rs7447927	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	115	135	0	0.676471	0	C|0.484;G|0.516	0.516	strong	.	TMEM173	19	.	NM_198282	exon3	c.G144C	p.V48V	GTGGAGCACCAGG	.	PASS	Atlas-SNP
CYP4F2	8529	hgsc.bcm.edu	37	19	15990431	15990431	+	Missense_Mutation	SNP	C	C	T	rs2108622	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	64	129	0	0.533333	0	C|0.779;T|0.221	0.221	strong	.	CYP4F2	97	.	NM_001082	exon11	c.G1297A	p.V433M	GCCACACAGCTGG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9072875	9072875	+	Silent	SNP	G	G	A	rs73009098	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	487	237	529	0	0.486653	0	G|0.809;A|0.191	0.191	strong	.	MUC16	4315	.	NM_024690	exon3	c.C14571T	p.V4857V	AGATGTGACTTTA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	51	70	0	0.6	0	G|0.897;A|0.103	0.103	strong	.	SLC7A2	157	.	NM_001164771	exon1	c.G47A	p.R16Q	TTTGTCGAGGGTT	.	PASS	Atlas-SNP
ZNF626	199777	hgsc.bcm.edu	37	19	20808414	20808414	+	Missense_Mutation	SNP	C	C	T	rs8110802	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	50	86	0	0.409836	0	C|0.961;T|0.039	0.039	strong	.	ZNF626	121	.	NM_001076675	exon4	c.G269A	p.S90N	TTCATGCTCTGCT	.	PASS	Atlas-SNP
OPN4	94233	hgsc.bcm.edu	37	10	88414569	88414569	+	Missense_Mutation	SNP	C	C	T	rs2675703	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	48	90	0	0.45283	0	C|0.900;T|0.100	0.100	strong	OPN4,NS,carcinoma,0,1	OPN4	61	1	NM_033282	exon1	c.C29T	p.P10L	GAGTCCCGCCCAG	.	PASS	Atlas-SNP
STK36	27148	hgsc.bcm.edu	37	2	219562675	219562675	+	Missense_Mutation	SNP	G	G	A	rs1863704	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	92	229	0	0.423963	0	G|0.767;A|0.233	0.233	strong	STK36,rectum,carcinoma,0,1	STK36	111	1	NM_015690	exon25	c.G3008A	p.G1003D	TTATAGGTGTCTT	.	PASS	Atlas-SNP
ZNF770	54989	hgsc.bcm.edu	37	15	35273760	35273760	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	2	118	0	0.0127389	0	.	.	none	ZNF770,NS,carcinoma,0,1	ZNF770	64	1	NM_014106	exon3	c.C1876T	p.R626X	TGCATCGGTACAG	.	scavenged	Atlas-SNP
FRMD3	257019	hgsc.bcm.edu	37	9	85863091	85863091	+	Silent	SNP	A	A	G	rs10114696	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	79	84	0	1	0	A|0.685;G|0.315	0.315	strong	.	FRMD3	96	.	NM_174938	exon14	c.T1536C	p.Y512Y	AATGTCATAGCTC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9056989	9056989	+	Missense_Mutation	SNP	C	C	G	rs4804381	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	50	111	0	0.446429	0	C|0.780;G|0.220	0.220	strong	.	MUC16	4315	.	NM_024690	exon3	c.G30457C	p.E10153Q	TGGTCTCAAAATT	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1268979	1268979	+	Missense_Mutation	SNP	C	C	T	rs72552054	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	96	218	0	0.494845	0	C|0.992;T|0.008	0.008	strong	.	CACNA1H	317	.	NM_021098	exon34	c.C5897T	p.A1966V	CCGTTGCCTCTGT	.	PASS	Atlas-SNP
CIT	11113	hgsc.bcm.edu	37	12	120156141	120156141	+	Silent	SNP	G	G	A	rs278102	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	50	128	0	0.561798	0	G|0.760;A|0.240	0.240	strong	.	CIT	535	.	NM_001206999	exon32	c.C4077T	p.S1359S	GATGGCGGACATG	.	PASS	Atlas-SNP
ATP6V0A2	23545	hgsc.bcm.edu	37	12	124209332	124209332	+	Silent	SNP	T	T	C	rs1139789	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	36	61	0	0.571429	0	T|0.317;G|0.037	.	strong	.	ATP6V0A2	68	.	NM_012463	exon4	c.T426C	p.N142N	ACGCAATGTTGAG	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56247180	56247180	+	Silent	SNP	T	T	C	rs9958735	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	278	277	279	0	0.996403	0	T|0.502;C|0.498	0.498	strong	.	ALPK2	487	.	NM_052947	exon4	c.A828G	p.L276L	CTCAGATAGCGGG	.	PASS	Atlas-SNP
PCDH1	5097	hgsc.bcm.edu	37	5	141243646	141243646	+	Silent	SNP	A	A	G	rs3797054	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	62	82	0	0.613861	0	A|0.640;G|0.360	0.360	strong	.	PCDH1	119	.	NM_032420	exon3	c.T2250C	p.A750A	CAGCTCAGCATTG	.	PASS	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	37	19	49967981	49967981	+	Silent	SNP	T	T	G	rs11558188	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	96	111	0	0.989691	0	T|0.692;G|0.308	0.308	strong	.	ALDH16A1	54	.	NM_153329	exon12	c.T1530G	p.V510V	CGCTGTTCCCTCA	.	PASS	Atlas-SNP
PAPPA2	60676	hgsc.bcm.edu	37	1	176809368	176809368	+	Silent	SNP	C	C	T	rs12118034	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	70	97	0	0.526316	0	C|0.879;T|0.121	0.121	strong	.	PAPPA2	665	.	NM_020318	exon22	c.C5262T	p.D1754D	CTATGACGGGGGA	.	PASS	Atlas-SNP
ZNF519	162655	hgsc.bcm.edu	37	18	14105770	14105770	+	Missense_Mutation	SNP	T	T	C	rs61730995	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	31	94	0	0.469697	0	T|0.996;C|0.004	0.004	strong	.	ZNF519	53	.	NM_145287	exon3	c.A769G	p.I257V	TAATTATCTTATG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	119	285	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
NTNG2	84628	hgsc.bcm.edu	37	9	135073877	135073877	+	Silent	SNP	C	C	T	rs3824574	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	72	148	0	0.503497	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
ITPA	3704	hgsc.bcm.edu	37	20	3204084	3204084	+	Silent	SNP	G	G	A	rs9101	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	62	69	1	0.96875	0.0144928	G|0.729;A|0.271	0.271	strong	ITPA,NS,carcinoma,0,1	ITPA	16	1	NM_033453	exon8	c.G561A	p.E187E	GCAGGAGTACTTT	.	scavenged	Atlas-SNP
ZNF417	147687	hgsc.bcm.edu	37	19	58420682	58420682	+	Missense_Mutation	SNP	T	T	C	rs202194085	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	332	43	386	0	0.129518	0	.	.	weak	.	ZNF417	44	.	NM_152475	exon3	c.A964G	p.R322G	AAGGCCTTTCTCC	.	PASS	Atlas-SNP
OR4K1	79544	hgsc.bcm.edu	37	14	20404614	20404614	+	Missense_Mutation	SNP	C	C	A	rs34608158	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	29	74	0	0.358025	0	C|0.801;A|0.199	0.199	strong	.	OR4K1	108	.	NM_001004063	exon1	c.C789A	p.S263R	TTTTAGCAGACTT	.	PASS	Atlas-SNP
PNN	5411	hgsc.bcm.edu	37	14	39644498	39644498	+	Silent	SNP	G	G	A	rs1061583	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	31	59	0	0.484375	0	G|0.804;A|0.196	0.196	strong	PNN,right_upper_lobe,carcinoma,+2,1	PNN	67	1	NM_002687	exon1	c.G15A	p.V5V	CGCCGTGAGAACT	.	PASS	Atlas-SNP
ARHGAP30	257106	hgsc.bcm.edu	37	1	161019040	161019040	+	Missense_Mutation	SNP	G	G	C	rs3813609	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	111	116	0	1	0	G|0.539;C|0.461	0.461	strong	.	ARHGAP30	105	.	NM_001025598	exon12	c.C1771G	p.L591V	AGTCCAGGGAACA	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22160020	22160020	+	Missense_Mutation	SNP	C	C	T	rs17459097	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	55	161	0	0.317919	0	C|0.962;T|0.038	0.038	strong	.	HSPG2	311	.	NM_005529	exon79	c.G10918A	p.V3640I	TGCAGACGTAGGT	.	PASS	Atlas-SNP
OR1I1	126370	hgsc.bcm.edu	37	19	15198606	15198606	+	Missense_Mutation	SNP	C	C	T	rs73008812	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	60	117	0	0.545455	0	C|0.866;T|0.134	0.134	strong	.	OR1I1	58	.	NM_001004713	exon1	c.C730T	p.H244Y	GGCTTACACCTCA	.	PASS	Atlas-SNP
MYH14	79784	hgsc.bcm.edu	37	19	50771609	50771609	+	Silent	SNP	G	G	A	rs3745504	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	42	71	0	0.525	0	G|0.514;A|0.486	0.486	strong	.	MYH14	261	.	NM_001145809	exon24	c.G3018A	p.L1006L	GAGGCTGCAGCAG	.	PASS	Atlas-SNP
ADCYAP1	116	hgsc.bcm.edu	37	18	907675	907675	+	Silent	SNP	G	G	A	rs8192597	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	11	10	18	0	0.909091	0	G|0.306;A|0.694	0.694	strong	ADCYAP1,NS,carcinoma,0,1	ADCYAP1	24	1	NM_001099733	exon3	c.G126A	p.A42A	AGAGGCGTACGGC	.	PASS	Atlas-SNP
B3GALNT1	8706	hgsc.bcm.edu	37	3	160804167	160804167	+	Missense_Mutation	SNP	C	C	T	rs2231257	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	26	68	0	0.366197	0	C|0.973;T|0.027	0.027	strong	.	B3GALNT1	34	.	NM_001038628	exon8	c.G376A	p.D126N	TTTTGTCTTCCTT	.	PASS	Atlas-SNP
UBQLN3	50613	hgsc.bcm.edu	37	11	5528918	5528918	+	Missense_Mutation	SNP	C	C	T	rs2227271	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	122	107	0	0.983871	0	C|0.756;T|0.244	0.244	strong	UBQLN3,NS,carcinoma,0,4	UBQLN3	107	4	NM_017481	exon2	c.G1871A	p.R624Q	ATGGACCGCAGTT	.	PASS	Atlas-SNP
FAM154B	283726	hgsc.bcm.edu	37	15	82574461	82574461	+	Silent	SNP	C	C	T	rs76375505	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	53	108	0	0.456897	0	C|0.977;T|0.023	0.023	strong	.	FAM154B	50	.	NM_001008226	exon3	c.C255T	p.D85D	TCAAGACGATTAT	.	PASS	Atlas-SNP
NOS2	4843	hgsc.bcm.edu	37	17	26105932	26105932	+	Silent	SNP	G	G	A	rs1137933	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	92	84	0	1	0	G|0.794;N|0.002	.	strong	.	NOS2	113	.	NM_000625	exon10	c.C1155T	p.D385D	CTGGACGTCACAG	.	PASS	Atlas-SNP
ATP2C2	9914	hgsc.bcm.edu	37	16	84402275	84402275	+	Silent	SNP	G	G	C	rs62048787	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	59	64	0	1	0	G|0.597;C|0.403	0.403	strong	ATP2C2,rectum,carcinoma,0,3	ATP2C2	75	3	NM_014861	exon1	c.G54C	p.G18G	GGGCGGGGGCCGC	.	PASS	Atlas-SNP
MRPL4	51073	hgsc.bcm.edu	37	19	10363251	10363251	+	Missense_Mutation	SNP	A	A	C	rs113197610	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	29	55	0	0.568627	0	A|0.988;C|0.012	0.012	strong	.	MRPL4	22	.	NM_146387	exon4	c.A149C	p.K50T	TGCGCAAAGTCGA	.	PASS	Atlas-SNP
LGR5	8549	hgsc.bcm.edu	37	12	71977427	71977427	+	Missense_Mutation	SNP	G	G	A	rs200272164	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268	123	281	0	0.458955	0	G|1.000;A|0.000	0.000	strong	.	LGR5	103	.	NM_003667	exon18	c.G1637A	p.G546D	TTCTAGGCCCCTT	.	PASS	Atlas-SNP
DCAF8L1	139425	hgsc.bcm.edu	37	X	27999146	27999146	+	Silent	SNP	C	C	T	rs41311803	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	151	288	0	0.993421	0	C|0.904;T|0.096	0.096	strong	.	DCAF8L1	121	.	NM_001017930	exon1	c.G306A	p.E102E	TTCTTCCTCCTCC	.	PASS	Atlas-SNP
SCARF1	8578	hgsc.bcm.edu	37	17	1542153	1542153	+	Silent	SNP	G	G	A	rs2272012	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224	223	183	0	0.995536	0	G|0.403;A|0.597	0.597	strong	.	SCARF1	46	.	NM_145350	exon8	c.C1311T	p.G437G	GGCAAGGCCCAGG	.	PASS	Atlas-SNP
LAMC3	10319	hgsc.bcm.edu	37	9	133962930	133962930	+	Missense_Mutation	SNP	C	C	T	rs7024108	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	69	147	0	0.463087	0	C|0.725;T|0.275	0.275	strong	.	LAMC3	167	.	NM_006059	exon26	c.C4298T	p.T1433M	GCCAGACGCAAGC	.	PASS	Atlas-SNP
UGT1A3	54659	hgsc.bcm.edu	37	2	234638580	234638580	+	Missense_Mutation	SNP	A	A	G	rs45449995	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	109	204	0	0.475983	0	A|0.962;G|0.038	0.038	strong	.	UGT1A3	91	.	NM_019093	exon1	c.A808G	p.M270V	CCAATCATGCCCA	.	PASS	Atlas-SNP
UBE2O	63893	hgsc.bcm.edu	37	17	74392249	74392249	+	Silent	SNP	G	G	A	rs76110889	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	38	78	0	0.475	0	G|0.992;A|0.008	0.008	strong	.	UBE2O	207	.	NM_022066	exon14	c.C2769T	p.S923S	CTTGGCGCTGGTG	.	PASS	Atlas-SNP
PCSK1	5122	hgsc.bcm.edu	37	5	95728898	95728898	+	Missense_Mutation	SNP	C	C	G	rs6235	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	444	199	439	0	0.448198	0	C|0.756;G|0.244	0.244	strong	.	PCSK1	93	.	NM_000439	exon14	c.G2069C	p.S690T	TTTGCACTTGGGG	.	PASS	Atlas-SNP
CDH3	1001	hgsc.bcm.edu	37	16	68712730	68712730	+	Silent	SNP	C	C	A	rs8049247	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	52	152	0	0.4	0	C|0.825;A|0.175	0.175	strong	.	CDH3	68	.	NM_001793	exon6	c.C612A	p.I204I	CATCATCGTGACC	.	PASS	Atlas-SNP
ADHFE1	137872	hgsc.bcm.edu	37	8	67369355	67369355	+	Silent	SNP	G	G	C	rs2555588	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	33	75	0	0.34375	0	G|0.827;C|0.173	0.173	strong	.	ADHFE1	83	.	NM_144650	exon12	c.G1116C	p.T372T	TTTCACGGCCCAG	.	PASS	Atlas-SNP
ZNF862	643641	hgsc.bcm.edu	37	7	149558409	149558409	+	Silent	SNP	G	G	C	rs2240361	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	41	81	0	0.445652	0	G|0.536;C|0.464	0.464	strong	.	ZNF862	97	.	NM_001099220	exon7	c.G2160C	p.L720L	GCTGCTGCCTGTC	.	PASS	Atlas-SNP
SORBS1	10580	hgsc.bcm.edu	37	10	97141523	97141523	+	Silent	SNP	G	G	A	rs2274490	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	105	126	0	1	0	G|0.436;A|0.564	0.564	strong	.	SORBS1	185	.	NM_001034955	exon16	c.C1638T	p.D546D	TCTTGTGTCTACT	.	PASS	Atlas-SNP
ITGBL1	9358	hgsc.bcm.edu	37	13	102366825	102366825	+	Silent	SNP	A	A	G	rs2281991	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	123	259	0	0.518987	0	A|0.829;G|0.171	0.171	strong	.	ITGBL1	83	.	NM_004791	exon10	c.A1317G	p.E439E	TGCTGAAGAGTGG	.	PASS	Atlas-SNP
CDS1	1040	hgsc.bcm.edu	37	4	85530633	85530633	+	Missense_Mutation	SNP	G	G	T	rs36068434	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	98	186	0	0.513089	0	G|0.964;T|0.036	0.036	strong	.	CDS1	58	.	NM_001263	exon3	c.G297T	p.L99F	CTCGTTGTTTTTC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9060656	9060656	+	Silent	SNP	C	C	T	rs2216663	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	100	197	0	0.574713	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
ADAM29	11086	hgsc.bcm.edu	37	4	175898913	175898913	+	Missense_Mutation	SNP	C	C	T	rs142711835		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	21	145	0	0.10396	0	.	.	weak	ADAM29,rectum,carcinoma,0,22	ADAM29	262	22	NM_001130703	exon4	c.C2237T	p.T746M	CTGTGACGCCTTC	.	scavenged	Atlas-SNP
EMR2	30817	hgsc.bcm.edu	37	19	14875388	14875388	+	Missense_Mutation	SNP	G	G	A	rs35612307	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	78	135	0	0.530612	0	G|0.765;A|0.235	0.235	strong	.	EMR2	99	.	NM_001271052	exon10	c.C941T	p.A314V	CCAGGGGCCTCCA	.	PASS	Atlas-SNP
OR10H2	26538	hgsc.bcm.edu	37	19	15839174	15839174	+	Silent	SNP	C	C	T	rs74730938		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	318	117	334	0	0.367925	0	T|1.000;|0.000	1.000	weak	.	OR10H2	59	.	NM_013939	exon1	c.C321T	p.F107F	CAGCTTCGGCTTC	.	PASS	Atlas-SNP
UTP6	55813	hgsc.bcm.edu	37	17	30222002	30222002	+	Missense_Mutation	SNP	T	T	C	rs3760454	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	85	221	0	0.391705	0	T|0.638;C|0.362	0.362	strong	.	UTP6	46	.	NM_018428	exon3	c.A206G	p.Q69R	CTTCTCTGGATCA	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957592	111957592	+	Missense_Mutation	SNP	A	A	G	rs56294468	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	92	199	0	0.978723	0	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	.	PASS	Atlas-SNP
MTOR	2475	hgsc.bcm.edu	37	1	11205058	11205058	+	Silent	SNP	C	C	T	rs1057079	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	112	108	0	1	0	C|0.437;T|0.563	0.563	strong	.	MTOR	327	.	NM_004958	exon33	c.G4731A	p.A1577A	TGCCATCGCAGTT	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47273726	47273726	+	Missense_Mutation	SNP	C	C	T	rs55904123	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	24	52	0	0.48	0	C|0.849;T|0.151	0.151	strong	PREX1_ENST00000396220,NS,adenoma,0,2	PREX1	441	2	NM_020820	exon18	c.G1975A	p.V659M	CAGCCACCTGGGT	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54725930	54725930	+	Missense_Mutation	SNP	C	C	T	rs61480095	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	147	577	0	0.574219	0	.	.	weak	LILRB3,NS,carcinoma,0,11	LILRB3	67	11	NM_006864	exon4	c.G428A	p.R143Q	CCACATCGGAGGG	.	PASS	Atlas-SNP
DMXL2	23312	hgsc.bcm.edu	37	15	51914662	51914662	+	Silent	SNP	G	G	A	rs2278990	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	68	131	0	0.425	0	G|0.567;A|0.433	0.433	strong	.	DMXL2	262	.	NM_001174117	exon1	c.C81T	p.P27P	CGTGAAGGGGACA	.	PASS	Atlas-SNP
SEMG1	6406	hgsc.bcm.edu	37	20	43837052	43837052	+	Missense_Mutation	SNP	C	C	A	rs199672858	by1000genomes;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	2	143	0	0.010929	0	C|1.000;T|0.000	.	alt	SEMG1,bladder,carcinoma,0,3	SEMG1	71	3	NM_003007	exon2	c.C1114A	p.R372S	TCCCAACGCAGTA	.	scavenged	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910371	29910371	+	Missense_Mutation	SNP	C	C	T	rs2230954	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	291	128	184	0	0.439863	0	C|0.872;T|0.128	0.128	strong	.	HLA-A	89	.	NM_001242758	exon1	c.C41T	p.S14L	TACTCTCGGGGGC	.	PASS	Atlas-SNP
ZNF131	7690	hgsc.bcm.edu	37	5	43161351	43161351	+	Silent	SNP	G	G	A	rs71627581	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	23	64	0	0.46	0	G|0.937;A|0.063	0.063	strong	.	ZNF131	51	.	NM_003432	exon5	c.G372A	p.R124R	TTTCAGGAACAAA	.	PASS	Atlas-SNP
FAM221A	340277	hgsc.bcm.edu	37	7	23728931	23728931	+	Missense_Mutation	SNP	T	T	C	rs35495590	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	25	45	0	0.531915	0	T|0.923;C|0.077	0.077	strong	.	.	.	.	NM_199136	exon3	c.T283C	p.C95R	CAGCAGTGCCCCA	.	PASS	Atlas-SNP
CCDC11	220136	hgsc.bcm.edu	37	18	47777244	47777244	+	Missense_Mutation	SNP	C	C	T	rs35193847	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	362	144	448	0	0.39779	0	C|0.738;T|0.262	0.262	strong	.	CCDC11	59	.	NM_145020	exon5	c.G880A	p.E294K	TCCTCTCTTGTAG	.	PASS	Atlas-SNP
ATP8B2	57198	hgsc.bcm.edu	37	1	154310048	154310048	+	Silent	SNP	C	C	G	rs1760795	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	314	127	231	0	0.404459	0	C|0.542;G|0.458	0.458	strong	.	ATP8B2	158	.	NM_001005855	exon12	c.C1062G	p.L354L	GGGTCTCTCCAGG	.	PASS	Atlas-SNP
NELFA	7469	hgsc.bcm.edu	37	4	2010507	2010507	+	Silent	SNP	C	C	T	rs373321225		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	3	200	0	0.02	0	.	.	weak	WHSC2,NS,carcinoma,0,1	.	.	1	NM_005663	exon1	c.G213A	p.T71T	GTGCAGCGTCCCG	.	scavenged	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49207398	49207398	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	31	195	0	0.150485	0	.	.	none	.	FOLH1	141	.	NM_004476	exon6	c.G649A	p.A217T	GCTGGGCATTTTT	.	PASS	Atlas-SNP
ARHGEF19	128272	hgsc.bcm.edu	37	1	16534646	16534646	+	Missense_Mutation	SNP	C	C	G	rs221058	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	68	198	0	0.386364	0	C|0.794;G|0.206	0.206	strong	ARHGEF19,colon,carcinoma,0,1	ARHGEF19	49	1	NM_153213	exon3	c.G487C	p.G163R	CCTGGCCAGGCTC	.	PASS	Atlas-SNP
CYB5D1	124637	hgsc.bcm.edu	37	17	7761512	7761512	+	Missense_Mutation	SNP	C	C	A	rs12453250	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	48	87	0	0.484848	0	C|0.814;A|0.186	0.186	strong	.	CYB5D1	16	.	NM_144607	exon1	c.C60A	p.F20L	CTATTTCACGCCG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1103296	1103296	+	Silent	SNP	T	T	C	rs7126405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	94	203	0	0.479592	0	T|0.845;C|0.155	0.155	strong	.	MUC2	614	.	NM_002457	exon47	c.T8034C	p.F2678F	CAACTTTGATGCC	.	PASS	Atlas-SNP
ZNF623	9831	hgsc.bcm.edu	37	8	144732450	144732450	+	Silent	SNP	G	G	A	rs3750204	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	84	153	0	0.512195	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
OR2T3	343173	hgsc.bcm.edu	37	1	248637416	248637416	+	Silent	SNP	G	G	C	rs75924848	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	929	254	937	0	0.273412	0	G|0.887;C|0.113	0.113	strong	.	OR2T3	79	.	NM_001005495	exon1	c.G765C	p.L255L	GCTGCTGCTCTTC	.	PASS	Atlas-SNP
PHTF2	57157	hgsc.bcm.edu	37	7	77569559	77569559	+	Silent	SNP	C	C	T	rs1064040	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	53	133	0	0.424	0	C|0.980;T|0.020	0.020	strong	.	PHTF2	104	.	NM_001127357	exon12	c.C1578T	p.R526R	GGTTCGCGTGTCT	.	PASS	Atlas-SNP
SKA3	221150	hgsc.bcm.edu	37	13	21729252	21729252	+	Missense_Mutation	SNP	T	T	C	rs11147976	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	35	104	0	0.2	0	T|0.889;C|0.111	0.111	strong	.	SKA3	76	.	NM_001166017	exon8	c.A1157G	p.K386R	CTCATTTTGTTCA	.	PASS	Atlas-SNP
MAPK6	5597	hgsc.bcm.edu	37	15	52353498	52353498	+	Missense_Mutation	SNP	C	C	G	rs35697691	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	257	121	246	0	0.470817	0	C|0.939;G|0.061	0.061	strong	MAPK6,face,carcinoma,0,5	MAPK6	70	5	NM_002748	exon5	c.C868G	p.L290V	GCAGCACTGGATT	.	PASS	Atlas-SNP
OR8D4	338662	hgsc.bcm.edu	37	11	123777861	123777861	+	Silent	SNP	T	T	C	rs61748875	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	124	267	1	0.506122	0.00374532	T|0.815;C|0.185	0.185	strong	OR8D4,NS,carcinoma,0,1	OR8D4	62	1	NM_001005197	exon1	c.T723C	p.C241C	CACCTGTAGCTCC	.	PASS	Atlas-SNP
GSE1	23199	hgsc.bcm.edu	37	16	85702028	85702028	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25	7	23	0	0.28	0	.	.	none	KIAA0182,NS,carcinoma,+1,1	.	.	1	NM_014615	exon14	c.A3413G	p.E1138G	ACATAGAAGGTAA	.	scavenged	Atlas-SNP
ARID4A	5926	hgsc.bcm.edu	37	14	58831142	58831142	+	Missense_Mutation	SNP	A	A	G	rs1051858	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	61	163	0	0.469231	0	A|0.645;G|0.354	0.354	strong	.	ARID4A	222	.	NM_002892	exon20	c.A2335G	p.T779A	GAAAAAACAGAAG	.	PASS	Atlas-SNP
SEC23IP	11196	hgsc.bcm.edu	37	10	121685559	121685559	+	Silent	SNP	G	G	A	rs12771873	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	49	103	0	0.515789	0	G|0.937;A|0.063	0.063	strong	SEC23IP,NS,carcinoma,0,1	SEC23IP	100	1	NM_007190	exon13	c.G2133A	p.A711A	AGCAGCGTCAGAA	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144997656	144997656	+	Silent	SNP	C	C	T	rs7016416	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	12	8	29	1	0.666667	0.0344828	C|0.718;T|0.282	0.282	strong	PLEC_ENST00000436759,NS,carcinoma,0,3	PLEC	1144	3	NM_201380	exon31	c.G6852A	p.A2284A	CCGCCGCGCCGCC	.	scavenged	Atlas-SNP
FBXO7	25793	hgsc.bcm.edu	37	22	32871383	32871383	+	Missense_Mutation	SNP	T	T	G	rs8137714	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	39	88	0	0.458824	0	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	.	PASS	Atlas-SNP
NPEPL1	79716	hgsc.bcm.edu	37	20	57290347	57290347	+	Missense_Mutation	SNP	C	C	G	rs6026468	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	21	70	0	0.362069	0	C|0.422;G|0.578	0.578	strong	.	NPEPL1	36	.	NM_024663	exon12	c.C1537G	p.L513V	GGGGACCTGGGGA	.	PASS	Atlas-SNP
NLRP14	338323	hgsc.bcm.edu	37	11	7091569	7091569	+	Missense_Mutation	SNP	C	C	T	rs17280682	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	48	120	0	0.413793	0	C|0.850;T|0.150	0.150	strong	.	NLRP14	187	.	NM_176822	exon11	c.C3028T	p.L1010F	TCTGCTCTTATCT	.	PASS	Atlas-SNP
CD248	57124	hgsc.bcm.edu	37	11	66083782	66083782	+	Silent	SNP	G	G	A	rs3741368	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	34	103	0	0.425	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
TANGO2	128989	hgsc.bcm.edu	37	22	20043504	20043504	+	Missense_Mutation	SNP	G	G	A	rs142442293	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	64	152	0	0.470588	0	G|0.996;A|0.004	0.004	strong	.	TANGO2	4	.	NM_152906	exon6	c.G419A	p.R140Q	GGAACCGAGGGGA	.	PASS	Atlas-SNP
TTC17	55761	hgsc.bcm.edu	37	11	43472746	43472746	+	Silent	SNP	C	C	T	rs11551137	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	39	65	0	0.6	0	C|0.929;T|0.071	0.071	strong	.	TTC17	112	.	NM_018259	exon21	c.C2961T	p.L987L	AAATCTCGGCAAA	.	PASS	Atlas-SNP
CCL25	6370	hgsc.bcm.edu	37	19	8122737	8122737	+	Silent	SNP	G	G	A	rs2303164	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	195	175	0	1	0	G|0.360;A|0.640	0.640	strong	.	CCL25	12	.	NM_005624	exon5	c.G378A	p.S126S	ATCATCGTCCAAG	.	PASS	Atlas-SNP
ZNF211	10520	hgsc.bcm.edu	37	19	58144715	58144715	+	Missense_Mutation	SNP	A	A	G	rs9749449	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	6	57	0	0.3	0	A|0.783;G|0.217	0.217	strong	ZNF211,colon,carcinoma,0,1	ZNF211	78	1	NM_198855	exon1	c.A1G	p.M1V	ATAGCGATGCTCG	.	scavenged	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274069	39274069	+	Missense_Mutation	SNP	G	G	C	rs75281517		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	162	142	0	0.993865	0	G|0.750;C|0.250	0.250	weak	.	KRTAP4-11	94	.	NM_033059	exon1	c.C499G	p.R167G	AGACTCGGCCACA	.	PASS	Atlas-SNP
TBC1D2B	23102	hgsc.bcm.edu	37	15	78369815	78369815	+	Silent	SNP	G	G	A	rs9047	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	20	23	0	0.5	0	G|0.810;A|0.190	0.190	strong	.	TBC1D2B	104	.	NM_144572	exon1	c.C180T	p.F60F	CGCGTCGAACACG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515414	195515414	+	Missense_Mutation	SNP	T	T	C	rs200193644	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	48	605	2	0.263736	0.00330579	T|0.963;C|0.037	0.037	strong	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.A3037G	p.S1013G	AAGGGCTGGTGAC	.	scavenged	Atlas-SNP
EID2	163126	hgsc.bcm.edu	37	19	40030654	40030654	+	Silent	SNP	G	G	C	rs76765165	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	9	23	0	0.409091	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
POU2F1	5451	hgsc.bcm.edu	37	1	167381251	167381251	+	Silent	SNP	A	A	G	rs2229284	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	55	118	0	0.369128	0	A|0.978;G|0.022	0.022	strong	.	POU2F1	120	.	NM_002697	exon14	c.A1611G	p.P537P	GCCTCCAGCTTCC	.	PASS	Atlas-SNP
FLRT1	23769	hgsc.bcm.edu	37	11	63885305	63885305	+	Silent	SNP	C	C	T	rs3824854	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	120	212	0	0.566038	0	C|0.855;T|0.145	0.145	strong	.	FLRT1	46	.	NM_013280	exon2	c.C1566T	p.P522P	GACACCCGTGTGT	.	PASS	Atlas-SNP
KLRC4	8302	hgsc.bcm.edu	37	12	10562025	10562025	+	Silent	SNP	C	C	T	rs1841957	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	338	337	315	0	0.997041	0	C|0.461;T|0.539	0.539	strong	.	KLRC4	23	.	NM_013431	exon1	c.G150A	p.S50S	ATGATCCGAAGAA	.	PASS	Atlas-SNP
CA6	765	hgsc.bcm.edu	37	1	9009444	9009444	+	Missense_Mutation	SNP	A	A	C	rs2274328	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	29	112	0	0.333333	0	A|0.488;C|0.511	0.511	strong	CA6_ENST00000319474,brain,glioma,0,2	CA6	47	2	NM_001270500	exon2	c.A202C	p.M68L	CTCAATATGACAG	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	37	9	79897117	79897117	+	Silent	SNP	G	G	A	rs11145366	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	121	178	0	0.542601	0	G|0.898;A|0.102	0.102	strong	VPS13A_ENST00000376634,NS,carcinoma,+1,3	VPS13A	735	3	NM_001018038	exon29	c.G3045A	p.P1015P	CCTTCCGCAATCA	.	PASS	Atlas-SNP
SRSF6	6431	hgsc.bcm.edu	37	20	42088708	42088708	+	Silent	SNP	G	G	A	rs61733949	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	59	86	0	0.437037	0	G|0.956;A|0.044	0.044	strong	.	SRSF6	37	.	NM_006275	exon4	c.G417A	p.A139A	CTATGCGGATGCC	.	PASS	Atlas-SNP
XYLT2	64132	hgsc.bcm.edu	37	17	48431197	48431197	+	Silent	SNP	C	C	T	rs739989	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	9	29	0	0.529412	0	C|0.856;T|0.144	0.144	strong	.	XYLT2	51	.	NM_022167	exon2	c.C342T	p.P114P	CCCACCCCCGGAA	.	PASS	Atlas-SNP
DENND1B	163486	hgsc.bcm.edu	37	1	197480927	197480927	+	Silent	SNP	C	C	T	rs12142127	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	298	126	248	0	0.422819	0	C|0.754;T|0.246	0.246	strong	.	DENND1B	108	.	NM_001195215	exon22	c.G1746A	p.Q582Q	CTTCCCCTGATCT	.	PASS	Atlas-SNP
GJA8	2703	hgsc.bcm.edu	37	1	147380886	147380886	+	Silent	SNP	C	C	T	rs3766503	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	38	77	0	0.463415	0	C|0.948;T|0.052	0.052	strong	GJA8,NS,carcinoma,0,1	GJA8	108	1	NM_005267	exon2	c.C804T	p.L268L	TCAGCTCCTAGAA	.	PASS	Atlas-SNP
MIOS	54468	hgsc.bcm.edu	37	7	7646687	7646687	+	Silent	SNP	A	A	G	rs4222	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	73	72	0	1	0	G|0.722;N|0.000	0.722	strong	.	MIOS	68	.	NM_019005	exon13	c.A2592G	p.T864T	TACAACAGGGAAT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9072221	9072221	+	Silent	SNP	G	G	A	rs66498329	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	49	105	0	0.441441	0	G|0.787;A|0.213	0.213	strong	MUC16_ENST00000397910,NS,carcinoma,-1,3	MUC16	4315	3	NM_024690	exon3	c.C15225T	p.G5075G	CACTAGGCCAGAG	.	PASS	Atlas-SNP
UGT1A7	54577	hgsc.bcm.edu	37	2	234590975	234590975	+	Missense_Mutation	SNP	G	G	A	rs78725335	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	46	156	0	0.356589	0	.	.	weak	.	UGT1A7	74	.	NM_019077	exon1	c.G392A	p.R131Q	ATGACCGAAAATT	.	PASS	Atlas-SNP
WDR43	23160	hgsc.bcm.edu	37	2	29152456	29152456	+	Silent	SNP	A	A	G	rs1140697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	191	169	0	1	0	A|0.564;G|0.436	0.436	strong	WDR43,NS,carcinoma,+2,1	WDR43	38	1	NM_015131	exon11	c.A1317G	p.E439E	CATTGAAGAACGT	.	PASS	Atlas-SNP
ABCG8	64241	hgsc.bcm.edu	37	2	44099433	44099433	+	Missense_Mutation	SNP	C	C	A	rs4148217	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	39	78	0	0.4875	0	A|0.212;C|0.788	0.212	strong	ABCG8,colon,carcinoma,0,1	ABCG8	98	1	NM_022437	exon8	c.C1199A	p.T400K	AGTTTACGACGCT	.	PASS	Atlas-SNP
PRR3	80742	hgsc.bcm.edu	37	6	30530203	30530203	+	Silent	SNP	A	A	G	rs61748658	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	56	101	0	0.486957	0	A|0.981;G|0.019	0.019	strong	.	PRR3	5	.	NM_025263	exon4	c.A498G	p.K166K	TGCCAAAAAGGGC	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	37	20	62378364	62378364	+	Silent	SNP	C	C	T	rs12625387	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	17	50	0	0.73913	0	C|0.724;T|0.276	0.276	strong	ZBTB46,rectum,carcinoma,0,1	ZBTB46	72	1	NM_025224	exon5	c.G1689A	p.A563A	GTCGTCCGCCAAC	.	PASS	Atlas-SNP
RSU1	6251	hgsc.bcm.edu	37	10	16796919	16796919	+	Silent	SNP	C	C	A	rs1049632	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	137	125	0	0.992754	0	C|0.598;A|0.402	0.402	strong	.	RSU1	31	.	NM_012425	exon5	c.G351T	p.T117T	GTTGTACGTCAAG	.	PASS	Atlas-SNP
ADRA2B	151	hgsc.bcm.edu	37	2	96780863	96780863	+	Silent	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	34	106	0	0.478873	0	.	.	none	.	ADRA2B	115	.	NM_000682	exon1	c.G1026C	p.L342L	CCTGCCCAGGAGC	.	PASS	Atlas-SNP
APLF	200558	hgsc.bcm.edu	37	2	68794483	68794483	+	Missense_Mutation	SNP	C	C	A	rs36021078	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	121	187	0	0.472656	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
EEA1	8411	hgsc.bcm.edu	37	12	93258665	93258665	+	Silent	SNP	A	A	G	rs17194451	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	56	106	0	0.643678	0	A|0.756;G|0.244	0.244	strong	.	EEA1	104	.	NM_003566	exon3	c.T216C	p.H72H	TCCTCCATGACCT	.	PASS	Atlas-SNP
METTL3	56339	hgsc.bcm.edu	37	14	21971694	21971694	+	Silent	SNP	C	C	G	rs11540964	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	27	54	0	0.457627	0	C|0.998;G|0.002	0.002	strong	.	METTL3	48	.	NM_019852	exon3	c.G345C	p.G115G	TTCTACCCCATCT	.	PASS	Atlas-SNP
POLN	353497	hgsc.bcm.edu	37	4	2181080	2181080	+	Silent	SNP	T	T	C	rs6830513	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	69	171	0	0.43949	0	T|0.715;C|0.285	0.285	strong	.	POLN	82	.	NM_181808	exon6	c.A1134G	p.T378T	TTTAACTGTAATG	.	PASS	Atlas-SNP
ITGA3	3675	hgsc.bcm.edu	37	17	48151353	48151353	+	Silent	SNP	T	T	C	rs2285524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	42	97	0	0.512195	0	T|0.775;C|0.225	0.225	strong	.	ITGA3	128	.	NM_005501	exon8	c.T1230C	p.L410L	GCTCCTTAGACAG	.	PASS	Atlas-SNP
GNG4	2786	hgsc.bcm.edu	37	1	235715523	235715523	+	Silent	SNP	A	A	G	rs14326	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	35	50	0	0.583333	0	A|0.429;G|0.571	0.571	strong	.	GNG4	18	.	NM_004485	exon3	c.T114C	p.A38A	GTCCGCAGCTGCC	.	PASS	Atlas-SNP
ATP6V0A4	50617	hgsc.bcm.edu	37	7	138417718	138417718	+	Silent	SNP	A	A	G	rs3807154	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	124	112	0	1	0	A|0.340;G|0.660	0.660	strong	.	ATP6V0A4	93	.	NM_130841	exon16	c.T1812C	p.H604H	AGATACATGGACG	.	PASS	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	37	17	29161845	29161845	+	Missense_Mutation	SNP	G	G	A	rs17826219	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	114	110	0	0.991304	0	G|0.889;A|0.111	0.111	strong	.	ATAD5	150	.	NM_024857	exon2	c.G746A	p.R249K	ACTCTAGAGATAA	.	PASS	Atlas-SNP
PXK	54899	hgsc.bcm.edu	37	3	58410554	58410554	+	Missense_Mutation	SNP	C	C	T	rs34579268	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	94	178	0	0.479592	0	C|0.691;T|0.309	0.309	strong	PXK_ENST00000356151,brain,glioma,0,1	PXK	89	1	NM_017771	exon18	c.C1604T	p.A535V	CCGAGGCACCTGC	.	PASS	Atlas-SNP
CFHR1	3078	hgsc.bcm.edu	37	1	196794680	196794680	+	Silent	SNP	G	G	A	rs41315553		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	3	1	0	0.0149254	0	.	.	weak	CFHR1,NS,carcinoma,0,1	CFHR1	47	1	NM_002113	exon2	c.G132A	p.Q44Q	TTCCCAGGTTCCT	.	scavenged	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057806	46057806	+	Missense_Mutation	SNP	G	G	A	rs4818950	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	105	180	0	0.558511	0	G|0.392;A|0.608	0.608	strong	.	KRTAP10-10	37	.	NM_181688	exon1	c.G472A	p.V158M	TGCTATGTGCCTG	.	PASS	Atlas-SNP
SCLY	51540	hgsc.bcm.edu	37	2	238990388	238990388	+	Missense_Mutation	SNP	G	G	A	rs3210400	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	64	105	0	0.520325	0	G|0.715;A|0.285	0.285	strong	.	SCLY	51	.	NM_016510	exon5	c.G547A	p.A183T	GGGCAGGCAGAGG	.	PASS	Atlas-SNP
TMPO	7112	hgsc.bcm.edu	37	12	98938307	98938307	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	4	99	0	0.0305344	0	.	.	none	TMPO,colon,carcinoma,0,1	TMPO	111	1	NM_001032283	exon6	c.G871A	p.E291K	AGCAACGAATCCT	.	scavenged	Atlas-SNP
NBPF7	343505	hgsc.bcm.edu	37	1	120387120	120387120	+	Silent	SNP	G	G	A	rs12405228	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	26	78	0	0.346667	0	G|0.564;A|0.436	0.436	strong	.	NBPF7	46	.	NM_001047980	exon1	c.C39T	p.T13T	AGAAGAGGTGGAG	.	PASS	Atlas-SNP
LPCAT1	79888	hgsc.bcm.edu	37	5	1494909	1494909	+	Silent	SNP	C	C	T	rs3733796	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	64	75	0	0.581818	0	C|0.755;T|0.245	0.245	strong	LPCAT1,NS,carcinoma,-1,1	LPCAT1	70	1	NM_024830	exon3	c.G399A	p.A133A	GTGAGGCGCGAGC	.	PASS	Atlas-SNP
CDK5RAP3	80279	hgsc.bcm.edu	37	17	46053334	46053334	+	Silent	SNP	A	A	G	rs202125432	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	6	63	3	0.0681818	0.047619	A|0.949;G|0.051	0.051	strong	CDK5RAP3,NS,carcinoma,0,2	CDK5RAP3	38	2	NM_176096	exon8	c.A753G	p.E251E	GGTGGAACGACCC	.	scavenged	Atlas-SNP
KIAA0195	9772	hgsc.bcm.edu	37	17	73493874	73493874	+	Silent	SNP	G	G	C	rs12949173	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	134	105	0	0.992593	0	G|0.863;C|0.137	0.137	strong	.	KIAA0195	102	.	NM_014738	exon27	c.G3420C	p.L1140L	TCTGCTGGGGAAG	.	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	37	1	39748921	39748921	+	Silent	SNP	G	G	A	rs2275188	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	80	75	0	1	0	G|0.422;A|0.578	0.578	strong	.	MACF1	909	.	NM_012090	exon9	c.G771A	p.Q257Q	GGAACAGGCTTTT	.	PASS	Atlas-SNP
FMNL2	114793	hgsc.bcm.edu	37	2	153405594	153405594	+	Silent	SNP	G	G	A	rs1155779	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	61	115	0	0.525862	0	G|0.375;A|0.625	0.625	strong	.	FMNL2	75	.	NM_052905	exon4	c.G342A	p.L114L	TTCTTTGAGAACT	.	PASS	Atlas-SNP
NACA	4666	hgsc.bcm.edu	37	12	57108203	57108203	+	Silent	SNP	A	A	G	rs4902	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	234	233	216	0	0.995726	0	T|0.000;G|0.576;C|0.000;A|0.424	0.576	strong	NACA_ENST00000454682,NS,carcinoma,0,2	NACA	131	2	NM_001113203	exon7	c.T2307C	p.I769I	TTCATCAATTTCA	.	PASS	Atlas-SNP
KRT6B	3854	hgsc.bcm.edu	37	12	52844246	52844246	+	Silent	SNP	A	A	G	rs3194290		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	506	107	343	6	0.211462	0.0174927	.	.	weak	KRT6B,NS,carcinoma,0,1	KRT6B	90	1	NM_005555	exon2	c.T699C	p.G233G	CAGACGACCCCGT	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9048421	9048421	+	Silent	SNP	T	T	C	rs56194405	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	59	170	0	0.453846	0	T|0.792;C|0.208	0.208	strong	.	MUC16	4315	.	NM_024690	exon5	c.A33210G	p.T11070T	TGAAGGTGTGGTT	.	PASS	Atlas-SNP
C9orf123	90871	hgsc.bcm.edu	37	9	7799653	7799653	+	Missense_Mutation	SNP	G	G	T	rs1127430	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	14	45	0	0.466667	0	G|0.647;T|0.353	0.353	strong	.	C9orf123	7	.	NM_033428	exon1	c.C82A	p.P28T	CTGGGGGCGCAGG	.	PASS	Atlas-SNP
SPRR3	6707	hgsc.bcm.edu	37	1	152975763	152975763	+	Silent	SNP	C	C	A	rs1977734	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	66	129	0	0.481752	0	T|0.000;C|0.476;A|0.524	0.524	strong	.	SPRR3	45	.	NM_001097589	exon2	c.C267A	p.G89G	GCCAGGCTGTACC	.	PASS	Atlas-SNP
HIST1H3J	8356	hgsc.bcm.edu	37	6	27858421	27858421	+	Silent	SNP	A	A	G	rs200973	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	44	121	0	0.407407	0	A|0.839;G|0.161	0.161	strong	.	HIST1H3J	16	.	NM_003535	exon1	c.T150C	p.R50R	GATCTCACGCAAG	.	PASS	Atlas-SNP
OR51A2	401667	hgsc.bcm.edu	37	11	4976659	4976659	+	Silent	SNP	A	A	T	rs3986369	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	341	5	658	0	0.0146628	0	A|0.689;T|0.311	0.311	strong	OR51A2,NS,carcinoma,0,1	OR51A2	40	1	NM_001004748	exon1	c.T285A	p.S95S	ACTAGAAGAAGTT	.	scavenged	Atlas-SNP
OTOGL	283310	hgsc.bcm.edu	37	12	80765800	80765800	+	Missense_Mutation	SNP	A	A	G	rs1551122	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	35	53	0	0.564516	0	A|0.518;G|0.482	0.482	strong	.	OTOGL	235	.	NM_173591	exon56	c.A6710G	p.N2237S	TCTAGAATGAAGG	.	PASS	Atlas-SNP
CHD9	80205	hgsc.bcm.edu	37	16	53262964	53262964	+	Silent	SNP	C	C	T	rs35198193	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	50	117	0	0.416667	0	C|0.864;T|0.136	0.136	strong	.	CHD9	203	.	NM_025134	exon8	c.C2238T	p.I746I	GAAAATCAAACGA	.	PASS	Atlas-SNP
FAM45A	404636	hgsc.bcm.edu	37	10	120896027	120896027	+	Silent	SNP	G	G	A	rs77080084		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	628	566	654	2	0.901274	0.0030581	.	.	weak	.	FAM45A	30	.	NM_207009	exon9	c.G942A	p.P314P	AGCACCGTTTTCA	.	PASS	Atlas-SNP
NAV1	89796	hgsc.bcm.edu	37	1	201777250	201777250	+	Missense_Mutation	SNP	C	C	T	rs2820289	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	289	288	239	0	0.99654	0	C|0.922;T|0.078	0.078	strong	NAV1,NS,carcinoma,-1,1	NAV1	143	1	NM_020443	exon18	c.C3818T	p.S1273L	CCACCTCGTCCTC	.	PASS	Atlas-SNP
RNF175	285533	hgsc.bcm.edu	37	4	154631563	154631563	+	Missense_Mutation	SNP	T	T	C	rs1339	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	45	88	0	0.5	0	T|0.834;C|0.166	0.166	strong	.	RNF175	40	.	NM_173662	exon9	c.A945G	p.I315M	TATTCCTATCACC	.	PASS	Atlas-SNP
PCDH9	5101	hgsc.bcm.edu	37	13	67801532	67801532	+	Silent	SNP	A	A	G	rs45527937	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	61	165	0	0.512605	0	A|0.981;G|0.019	0.019	strong	.	PCDH9	252	.	NM_203487	exon2	c.T1041C	p.N347N	GGTGACATTGATG	.	PASS	Atlas-SNP
RFXANK	8625	hgsc.bcm.edu	37	19	19307817	19307817	+	Missense_Mutation	SNP	G	G	A	rs375541634		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	18	40	0	0.382979	0	.	.	weak	.	RFXANK	31	.	NM_003721	exon4	c.G233A	p.R78Q	GGCAGCGAGGGAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	74	70	0	0.973684	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
ASPM	259266	hgsc.bcm.edu	37	1	197112533	197112533	+	Silent	SNP	G	G	A	rs6677082	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	75	124	0	0.539568	0	G|0.240;A|0.760	0.760	strong	.	ASPM	444	.	NM_001206846	exon3	c.C849T	p.S283S	ATTTACGGAATTA	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38981284	38981284	+	Silent	SNP	A	A	G	rs2228068	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	53	96	0	0.445378	0	A|0.927;G|0.073	0.073	strong	.	RYR1	708	.	NM_001042723	exon37	c.A6039G	p.K2013K	ATTCAAAGATGGT	.	PASS	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73566561	73566561	+	Silent	SNP	G	G	A	rs2305525	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	16	26	0	0.484848	0	G|0.868;A|0.132	0.132	strong	.	LLGL2	155	.	NM_004524	exon16	c.G2007A	p.P669P	GCACCCGGCTGGC	.	PASS	Atlas-SNP
NLRP5	126206	hgsc.bcm.edu	37	19	56539240	56539240	+	Silent	SNP	C	C	T	rs397977	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	148	153	0	1	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
TDRD6	221400	hgsc.bcm.edu	37	6	46658905	46658905	+	Missense_Mutation	SNP	C	C	G	rs9381472	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	76	46	0	1	0	C|0.649;G|0.351	0.351	strong	.	TDRD6	205	.	NM_001168359	exon1	c.C3040G	p.Q1014E	TTAGAACAGTTGT	.	PASS	Atlas-SNP
UBR3	130507	hgsc.bcm.edu	37	2	170789504	170789504	+	Silent	SNP	C	C	T	rs73015765	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	83	134	0	0.528662	0	C|0.961;T|0.039	0.039	strong	.	UBR3	182	.	NM_172070	exon19	c.C2649T	p.D883D	AATGGACAGATAT	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52888050	52888050	+	Missense_Mutation	SNP	A	A	G	rs76053634	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	13	40	0	0.309524	0	A|0.867;G|0.133	0.133	strong	ZNF880,colon,carcinoma,0,2	ZNF880	45	2	NM_001145434	exon4	c.A1217G	p.Q406R	GAGAGCAACCTTA	.	PASS	Atlas-SNP
ANP32D	23519	hgsc.bcm.edu	37	12	48866585	48866585	+	Missense_Mutation	SNP	A	A	C	rs7956679	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	102	177	0	0.539683	0	A|0.837;C|0.163	0.163	strong	ANP32D,colon,carcinoma,+1,1	ANP32D	15	1	NM_012404	exon1	c.A138C	p.L46F	GGAATTATTAAAT	.	PASS	Atlas-SNP
ECM1	1893	hgsc.bcm.edu	37	1	150485839	150485839	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235	3	185	0	0.012766	0	.	.	none	ECM1,NS,carcinoma,0,1	ECM1	96	1	NM_001202858	exon10	c.G1600A	p.V534M	AGGAACGTGGCTC	.	scavenged	Atlas-SNP
TRDN	10345	hgsc.bcm.edu	37	6	123703291	123703291	+	Missense_Mutation	SNP	A	A	C	rs200706450		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	55	180	0	0.416667	0	.	.	weak	.	TRDN	88	.	NM_001251987	exon15	c.T1140G	p.D380E	CTTGGAATCTGAA	.	PASS	Atlas-SNP
DNAJC30	84277	hgsc.bcm.edu	37	7	73097082	73097082	+	Silent	SNP	A	A	G	rs79849491	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	34	80	0	0.465753	0	A|0.966;G|0.034	0.034	strong	.	DNAJC30	12	.	NM_032317	exon1	c.T672C	p.F224F	AATATAAAAGCCG	.	PASS	Atlas-SNP
SLC4A8	9498	hgsc.bcm.edu	37	12	51856159	51856159	+	Silent	SNP	C	C	T	rs71449805	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	61	104	0	0.469231	0	C|0.974;T|0.026	0.026	strong	.	SLC4A8	292	.	NM_001039960	exon10	c.C1167T	p.F389F	TGAGTTCCTAGAC	.	PASS	Atlas-SNP
STRAP	11171	hgsc.bcm.edu	37	12	16042908	16042908	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	325	45	309	0	0.138462	0	.	.	none	.	STRAP	33	.	NM_007178	exon3	c.C295T	p.H99Y	CTGGCTCATAAAC	.	PASS	Atlas-SNP
SLC12A5	57468	hgsc.bcm.edu	37	20	44680493	44680493	+	Silent	SNP	G	G	A	rs17344810	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	27	42	0	0.435484	0	G|0.909;A|0.091	0.091	strong	.	SLC12A5	181	.	NM_001134771	exon18	c.G2430A	p.T810T	TCAGACGTGGAGG	.	PASS	Atlas-SNP
KIF1C	10749	hgsc.bcm.edu	37	17	4926882	4926882	+	Silent	SNP	A	A	G	rs346828	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	61	166	1	0.426573	0.0060241	A|0.339;G|0.661	0.661	strong	KIF1C,NS,carcinoma,0,1	KIF1C	70	1	NM_006612	exon23	c.A2748G	p.P916P	CTCGCCACCACTG	.	scavenged	Atlas-SNP
MYH15	22989	hgsc.bcm.edu	37	3	108189627	108189627	+	Missense_Mutation	SNP	C	C	T	rs4299484	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	71	111	0	0.563492	0	C|0.833;T|0.167	0.167	strong	MYH15,NS,carcinoma,0,1	MYH15	223	1	NM_014981	exon14	c.G1361A	p.R454Q	TTGATCCGTGCCA	.	PASS	Atlas-SNP
FAM166B	730112	hgsc.bcm.edu	37	9	35563361	35563361	+	Missense_Mutation	SNP	G	G	A	rs75679360	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	26	44	0	0.472727	0	G|0.963;A|0.037	0.037	strong	.	FAM166B	19	.	NM_001099951	exon2	c.C88T	p.R30W	TGAACCGAAGTAG	.	PASS	Atlas-SNP
PSTPIP2	9050	hgsc.bcm.edu	37	18	43573649	43573649	+	Silent	SNP	A	A	G	rs116067668	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	49	165	0	0.342657	0	A|0.976;G|0.024	0.024	strong	.	PSTPIP2	65	.	NM_024430	exon10	c.T663C	p.C221C	TCGTTCACATTCT	.	PASS	Atlas-SNP
ULK1	8408	hgsc.bcm.edu	37	12	132396603	132396603	+	Silent	SNP	C	C	T	rs11616018	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	166	183	0	0.994012	0	C|0.397;T|0.603	0.603	strong	ULK1,NS,carcinoma,0,1	ULK1	92	1	NM_003565	exon13	c.C1065T	p.D355D	CACAGACGACTTC	.	PASS	Atlas-SNP
DLC1	10395	hgsc.bcm.edu	37	8	12958145	12958145	+	Silent	SNP	T	T	G	rs61757612	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	33	94	0	0.515625	0	T|0.969;G|0.031	0.031	strong	.	DLC1	411	.	NM_182643	exon9	c.A1701C	p.P567P	GTCGTCTGGGGAC	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149484798	149484798	+	Missense_Mutation	SNP	C	C	T	rs62490656	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	23	44	0	0.605263	0	C|0.826;T|0.174	0.174	strong	.	.	.	.	NM_198455	exon25	c.C3620T	p.A1207V	GTGGGGCGCTGCT	.	PASS	Atlas-SNP
MYLK	4638	hgsc.bcm.edu	37	3	123452838	123452838	+	Silent	SNP	G	G	A	rs4678047	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	70	115	0	0.451613	0	A|0.608;G|0.392	0.608	strong	.	MYLK	224	.	NM_053025	exon10	c.C1005T	p.T335T	GACCGGGGTCTGC	.	PASS	Atlas-SNP
BPIFB2	80341	hgsc.bcm.edu	37	20	31596472	31596472	+	Missense_Mutation	SNP	A	A	T	rs6088066	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	42	131	0	0.42	0	A|0.820;T|0.180	0.180	strong	.	.	.	.	NM_025227	exon2	c.A92T	p.K31M	TCAACAAGGCAGC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911272	29911272	+	Missense_Mutation	SNP	T	T	G	rs76185201	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	370	77	252	2	0.208108	0.00793651	A|0.001;G|0.178;T|0.821	0.178	strong	HLA-A,colon,carcinoma,0,1	HLA-A	89	1	NM_001242758	exon3	c.T571G	p.W191G	GTGGAGTGGCTCC	.	scavenged	Atlas-SNP
IKBIP	121457	hgsc.bcm.edu	37	12	99007623	99007623	+	Missense_Mutation	SNP	C	C	T	rs1048906	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	87	160	0	0.450777	0	C|0.625;T|0.374	0.374	strong	.	IKBIP	46	.	NM_201612	exon3	c.G793A	p.G265S	TGTCACCTTCTAA	.	PASS	Atlas-SNP
EPHA2	1969	hgsc.bcm.edu	37	1	16451767	16451767	+	Silent	SNP	G	G	A	rs3754334	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	301	109	280	1	0.362126	0.00357143	G|0.777;A|0.223	0.223	strong	.	EPHA2	102	.	NM_004431	exon17	c.C2874T	p.I958I	GTAGGCGATGCGC	.	PASS	Atlas-SNP
ZNF208	7757	hgsc.bcm.edu	37	19	22155918	22155918	+	Missense_Mutation	SNP	T	T	C	rs79937054	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	26	70	0	0.38806	0	T|0.500;C|0.500	0.500	strong	.	ZNF208	817	.	NM_007153	exon4	c.A1918G	p.K640E	ATTCTTTACATTT	.	PASS	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	37	3	130124989	130124989	+	Silent	SNP	C	C	T	rs4688761	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	178	180	0	1	0	C|0.577;T|0.423	0.423	strong	.	COL6A5	205	.	NM_153264	exon16	c.C4395T	p.D1465D	TGGAGACGATGGG	.	PASS	Atlas-SNP
CR2	1380	hgsc.bcm.edu	37	1	207646898	207646898	+	Missense_Mutation	SNP	T	T	C	rs4308977	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	216	265	0	1	0	T|0.664;C|0.336	0.336	strong	.	CR2	164	.	NM_001006658	exon11	c.T1987C	p.S663P	TGCCAGTCACCTC	.	PASS	Atlas-SNP
CNTN1	1272	hgsc.bcm.edu	37	12	41312471	41312471	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	34	184	0	0.165854	0	.	.	none	.	CNTN1	207	.	NM_001256063	exon4	c.T125C	p.I42T	GACCAATTTTTGA	.	PASS	Atlas-SNP
FGA	2243	hgsc.bcm.edu	37	4	155507225	155507225	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	257	3	234	0	0.0116732	0	.	.	none	FGA,NS,carcinoma,-1,1	FGA	179	1	NM_000508	exon5	c.T1356C	p.G452G	TGTGCTACCAGAG	.	scavenged	Atlas-SNP
KPRP	448834	hgsc.bcm.edu	37	1	152732436	152732436	+	Silent	SNP	G	G	C	rs4845480	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	312	312	286	1	1	0.0034965	G|0.490;C|0.510	0.510	strong	KPRP,NS,carcinoma,+1,1	KPRP	152	1	NM_001025231	exon2	c.G372C	p.A124A	CGAAGCGTCACAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9057721	9057721	+	Missense_Mutation	SNP	C	C	T	rs2216662	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	249	231	0	0.988095	0	C|0.565;T|0.435	0.435	strong	.	MUC16	4315	.	NM_024690	exon3	c.G29725A	p.V9909I	TGGAGACTTCAGT	.	PASS	Atlas-SNP
GEMIN4	50628	hgsc.bcm.edu	37	17	649984	649984	+	Silent	SNP	G	G	A	rs147516197	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	52	89	0	0.525253	0	G|0.991;A|0.009	0.009	strong	.	GEMIN4	116	.	NM_015721	exon2	c.C1299T	p.F433F	GTCCGAGAAGGCC	.	PASS	Atlas-SNP
NPY	4852	hgsc.bcm.edu	37	7	24325009	24325009	+	Silent	SNP	G	G	A	rs5573	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	43	59	0	0.573333	0	A|0.483;C|0.000;G|0.517;T|0.000	0.483	strong	NPY,colon,carcinoma,0,1	NPY	25	1	NM_000905	exon2	c.G150A	p.S50S	CTACTCGGCGCTG	.	PASS	Atlas-SNP
SMARCC2	6601	hgsc.bcm.edu	37	12	56578682	56578682	+	Silent	SNP	T	T	C	rs7136420	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	77	146	0	0.527397	0	T|0.956;C|0.044	0.044	strong	.	SMARCC2	212	.	NM_139067	exon5	c.A438G	p.P146P	AATTTCTGGGCAC	.	PASS	Atlas-SNP
UBASH3A	53347	hgsc.bcm.edu	37	21	43863521	43863521	+	Silent	SNP	A	A	G	rs868092	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	65	88	0	1	0	A|0.359;G|0.641	0.641	strong	.	UBASH3A	72	.	NM_018961	exon13	c.A1731G	p.P577P	CTGTCCACAGGAC	.	PASS	Atlas-SNP
CDH3	1001	hgsc.bcm.edu	37	16	68713730	68713730	+	Silent	SNP	G	G	A	rs2296409	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	61	75	0	0.983871	0	G|0.368;A|0.632	0.632	strong	.	CDH3	68	.	NM_001793	exon7	c.G720A	p.T240T	AGCCACGGATGAG	.	PASS	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	37	1	118565953	118565953	+	Missense_Mutation	SNP	G	G	A	rs10923472	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	29	73	0	0.604167	0	G|0.682;A|0.318	0.318	strong	.	SPAG17	263	.	NM_206996	exon28	c.C4043T	p.P1348L	TCAGATGGTATCG	.	PASS	Atlas-SNP
NAALADL2	254827	hgsc.bcm.edu	37	3	175189447	175189447	+	Silent	SNP	G	G	A	rs9290555	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	247	301	1	1	0.00332226	G|0.456;A|0.544	0.544	strong	.	NAALADL2	86	.	NM_207015	exon9	c.G1554A	p.Q518Q	TCTTCAGAAAAAT	.	PASS	Atlas-SNP
SLC9A3	6550	hgsc.bcm.edu	37	5	475104	475104	+	Missense_Mutation	SNP	A	A	G	rs2247114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	79	154	0	0.552448	0	A|0.191;G|0.809	0.809	strong	.	SLC9A3	89	.	NM_004174	exon16	c.T2395C	p.C799R	GGCGGCAGAAGGT	.	PASS	Atlas-SNP
ACTR3B	57180	hgsc.bcm.edu	37	7	152497656	152497656	+	Silent	SNP	T	T	C	rs2462099		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	29	119	2	0.190789	0.0168067	.	.	weak	ACTR3B,NS,carcinoma,+1,1	ACTR3B	50	1	NM_020445	exon3	c.T141C	p.A47A	CCAAGCTCAAAGG	.	scavenged	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2833631	2833631	+	Silent	SNP	A	A	G	rs377542415		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	20	122	0	0.215054	0	.	.	weak	.	ARSD	47	.	NM_001669	exon6	c.T966C	p.Y322Y	ATCACCATATAAG	.	PASS	Atlas-SNP
LRRC16A	55604	hgsc.bcm.edu	37	6	25605091	25605091	+	Missense_Mutation	SNP	G	G	A	rs1012899	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	46	33	0	1	0	G|0.197;A|0.803	0.803	strong	.	LRRC16A	168	.	NM_001173977	exon34	c.G3604A	p.G1202S	TTGAGCGGCGTAG	.	PASS	Atlas-SNP
TM7SF3	51768	hgsc.bcm.edu	37	12	27143508	27143508	+	Missense_Mutation	SNP	G	G	A	rs10771314	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	145	104	0	0.993151	0	G|0.933;A|0.067	0.067	strong	.	TM7SF3	41	.	NM_016551	exon6	c.C743T	p.P248L	TGTCCCGGGAGGG	.	PASS	Atlas-SNP
TMEM133	83935	hgsc.bcm.edu	37	11	100863096	100863096	+	Silent	SNP	A	A	G	rs515552	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	76	168	0	0.5	0	A|0.773;G|0.227	0.227	strong	.	TMEM133	9	.	NM_032021	exon1	c.A57G	p.E19E	TCACGAAAAAGAA	.	PASS	Atlas-SNP
ANKRD53	79998	hgsc.bcm.edu	37	2	71212129	71212129	+	Missense_Mutation	SNP	A	A	T	rs3796100	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	14	72	0	0.518519	0	A|0.828;T|0.172	0.172	strong	.	ANKRD53	55	.	NM_001115116	exon6	c.A1292T	p.H431L	ATGGGCACGGCGG	.	PASS	Atlas-SNP
PLEKHH1	57475	hgsc.bcm.edu	37	14	68053802	68053802	+	Silent	SNP	T	T	C	rs734028	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	86	175	0	0.447917	0	T|0.452;C|0.548	0.548	strong	.	PLEKHH1	118	.	NM_020715	exon29	c.T3945C	p.A1315A	AGAAGCTACCTTC	.	PASS	Atlas-SNP
OR13D1	286365	hgsc.bcm.edu	37	9	107456933	107456933	+	Silent	SNP	C	C	T	rs12347076	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	96	206	0	0.436364	0	C|0.771;T|0.229	0.229	strong	.	OR13D1	42	.	NM_001004484	exon1	c.C231T	p.L77L	CCTCCTCATTATC	.	PASS	Atlas-SNP
BTBD11	121551	hgsc.bcm.edu	37	12	108051406	108051406	+	Missense_Mutation	SNP	G	G	A	rs12303478	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	95	201	0	0.472637	0	G|0.891;A|0.109	0.109	strong	.	BTBD11	122	.	NM_001018072	exon17	c.G3226A	p.G1076S	GGGACCGGCCAGG	.	PASS	Atlas-SNP
ZNF184	7738	hgsc.bcm.edu	37	6	27425185	27425185	+	Missense_Mutation	SNP	C	C	A	rs1883216	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	70	101	0	0.492958	0	C|0.387;A|0.613	0.613	strong	ZNF184,NS,carcinoma,+2,1	ZNF184	89	1	NM_007149	exon4	c.G79T	p.A27S	TCACCGCTTCCTG	.	PASS	Atlas-SNP
SLCO4A1	28231	hgsc.bcm.edu	37	20	61288038	61288038	+	Missense_Mutation	SNP	G	G	A	rs1047099	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25	13	47	0	0.52	0	A|0.172;C|0.010	0.172	strong	.	SLCO4A1	65	.	NM_016354	exon2	c.G232A	p.V78I	CGGTACGTCTCGG	.	PASS	Atlas-SNP
MS4A14	84689	hgsc.bcm.edu	37	11	60184277	60184277	+	Missense_Mutation	SNP	A	A	C	rs73481226	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	64	106	0	0.528926	0	A|0.960;C|0.040	0.040	strong	.	MS4A14	120	.	NM_001261828	exon6	c.A1935C	p.Q645H	GGCCCAAGAGAAG	.	PASS	Atlas-SNP
AGBL2	79841	hgsc.bcm.edu	37	11	47701528	47701528	+	Missense_Mutation	SNP	C	C	A	rs12286721	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	40	121	0	0.47619	0	C|0.420;A|0.580	0.580	strong	.	AGBL2	73	.	NM_024783	exon13	c.G2013T	p.M671I	TACCTTCATTTGG	.	PASS	Atlas-SNP
PHC2	1912	hgsc.bcm.edu	37	1	33820134	33820134	+	Missense_Mutation	SNP	C	C	T	rs12026290	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	41	91	0	0.401961	0	C|0.834;N|0.000	.	strong	.	PHC2	78	.	NM_198040	exon8	c.G1423A	p.V475M	GTGCCACTTCTTT	.	PASS	Atlas-SNP
CRIP3	401262	hgsc.bcm.edu	37	6	43273604	43273604	+	Missense_Mutation	SNP	A	A	G	rs2242416	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	87	129	0	0.58	0	G|0.469;N|0.000	0.469	strong	.	CRIP3	30	.	NM_206922	exon8	c.T563C	p.I188T	TCGCCAATGTTCA	.	PASS	Atlas-SNP
USP24	23358	hgsc.bcm.edu	37	1	55541174	55541174	+	Missense_Mutation	SNP	A	A	G	rs487230	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	64	267	0	0.374269	0	T|0.008;G|0.677	0.677	strong	.	USP24	323	.	NM_015306	exon63	c.T7403C	p.V2468A	CGCTCTACTTGTA	.	PASS	Atlas-SNP
ALDH3B2	222	hgsc.bcm.edu	37	11	67430762	67430762	+	Missense_Mutation	SNP	T	T	C	rs1551886	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	183	228	0	0.994565	0	T|0.136;C|0.864	0.864	strong	.	ALDH3B2	46	.	NM_001031615	exon10	c.A1082G	p.H361R	GGGTAGTGGATCT	.	PASS	Atlas-SNP
OR51S1	119692	hgsc.bcm.edu	37	11	4870298	4870298	+	Silent	SNP	T	T	G	rs11601065	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	316	155	273	0	0.490506	0	T|0.828;G|0.172	0.172	strong	.	OR51S1	83	.	NM_001004758	exon1	c.A141C	p.A47A	TCCCAGTGCAGAG	.	PASS	Atlas-SNP
DHRSX	207063	hgsc.bcm.edu	37	X	2139186	2139186	+	Missense_Mutation	SNP	C	C	T	rs12010	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	574	277	535	2	0.482578	0.00373832	C|0.714;T|0.286	0.286	strong	.	DHRSX	24	.	NM_145177	exon7	c.G889A	p.E297K	CTTTCTCGTTGTA	.	PASS	Atlas-SNP
GABRA1	2554	hgsc.bcm.edu	37	5	161281245	161281245	+	Silent	SNP	T	T	C	rs1129647	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	30	122	0	0.357143	0	T|0.776;C|0.224	0.224	strong	.	GABRA1	132	.	NM_001127643	exon4	c.T156C	p.G52G	AGATGGTTATGAC	.	PASS	Atlas-SNP
ARHGAP30	257106	hgsc.bcm.edu	37	1	161017556	161017556	+	Silent	SNP	C	C	T	rs2774279	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	69	122	0	0.522727	0	C|0.752;T|0.248	0.248	strong	.	ARHGAP30	105	.	NM_001025598	exon12	c.G3255A	p.R1085R	ATATGACCTGCGC	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97877440	97877440	+	Missense_Mutation	SNP	T	T	C	rs35711845	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	733	318	530	1	0.433834	0.00188679	T|0.500;C|0.500	0.500	strong	.	ANKRD36	170	.	NM_001164315	exon58	c.T3431C	p.M1144T	CGAATATGGCCAC	.	PASS	Atlas-SNP
XYLB	9942	hgsc.bcm.edu	37	3	38404472	38404472	+	Missense_Mutation	SNP	C	C	A	rs17118	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	56	65	0	1	0	C|0.731;A|0.269	0.269	strong	XYLB,caecum,carcinoma,+2,1	XYLB	50	1	NM_005108	exon4	c.C255A	p.D85E	CTTCGACTTCTCT	.	PASS	Atlas-SNP
TSHZ1	10194	hgsc.bcm.edu	37	18	72998004	72998004	+	Silent	SNP	T	T	C	rs3744908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	40	68	0	0.56338	0	T|0.690;C|0.310	0.310	strong	.	TSHZ1	104	.	NM_005786	exon2	c.T507C	p.Y169Y	CTCGTATGGGCTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	38	61	0	0.5	0	T|0.245;N|0.000	0.245	strong	.	SLC16A7	82	.	NM_001270622	exon6	c.A1333T	p.T445S	CAGAAGACCAGAG	.	PASS	Atlas-SNP
FRY	10129	hgsc.bcm.edu	37	13	32811607	32811607	+	Missense_Mutation	SNP	G	G	A	rs2806639	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	44	67	0	0.619718	0	G|0.755;A|0.245	0.245	strong	.	FRY	312	.	NM_023037	exon44	c.G5902A	p.G1968S	ACCAGCGGCAACA	.	PASS	Atlas-SNP
ASXL1	171023	hgsc.bcm.edu	37	20	31024274	31024274	+	Silent	SNP	T	T	C	rs4911231	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	26	63	0	0.472727	0	T|0.653;C|0.347	0.347	strong	.	ASXL1	1114	.	NM_015338	exon12	c.T3759C	p.S1253S	GGACAGTAATTCA	.	PASS	Atlas-SNP
MDGA1	266727	hgsc.bcm.edu	37	6	37626142	37626142	+	Silent	SNP	C	C	T	rs2273110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	30	57	0	0.46875	0	C|0.849;T|0.151	0.151	strong	.	MDGA1	104	.	NM_153487	exon3	c.G261A	p.S87S	GAACACCGATGTC	.	PASS	Atlas-SNP
OR13C2	392376	hgsc.bcm.edu	37	9	107367008	107367008	+	Missense_Mutation	SNP	T	T	C	rs10156474	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	104	247	0	0.421053	0	T|0.639;C|0.361	0.361	strong	.	OR13C2	46	.	NM_001004481	exon1	c.A901G	p.K301E	CATCCTTGTTTCT	.	PASS	Atlas-SNP
FAM65C	140876	hgsc.bcm.edu	37	20	49214188	49214188	+	Silent	SNP	C	C	T	rs35976890	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	57	108	0	0.5	0	C|0.957;T|0.043	0.043	strong	.	FAM65C	87	.	NM_080829	exon14	c.G1707A	p.E569E	GAAGCTCTCCAGG	.	PASS	Atlas-SNP
TANC1	85461	hgsc.bcm.edu	37	2	160086653	160086653	+	Silent	SNP	C	C	T	rs4664277	bycluster;by2hit2allele;byhapmap;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	89	101	0	1	0	.	.	alt	.	TANC1	157	.	NM_033394	exon27	c.C4716T	p.A1572A	CGCTGCCACTCCT	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6568213	6568213	+	Missense_Mutation	SNP	T	T	C	rs58186801	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	41	61	0	0.640625	0	T|0.825;C|0.175	0.175	strong	.	DNHD1	198	.	NM_144666	exon21	c.T6044C	p.M2015T	CAGCCATGGAGGA	.	PASS	Atlas-SNP
MPRIP	23164	hgsc.bcm.edu	37	17	17062241	17062241	+	Silent	SNP	C	C	G	rs11551189	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	75	191	0	0.431034	0	C|0.576;G|0.424	0.424	strong	MPRIP,caecum,carcinoma,+2,2	MPRIP	87	2	NM_015134	exon14	c.C1971G	p.A657A	CATCGCCCCCGTC	.	PASS	Atlas-SNP
RIPK4	54101	hgsc.bcm.edu	37	21	43164232	43164232	+	Silent	SNP	C	C	A	rs2277789	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	72	71	0	1	0	C|0.623;A|0.377	0.377	strong	.	RIPK4	151	.	NM_020639	exon7	c.G1005T	p.L335L	TGAGAGCAGCTCG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179583317	179583317	+	Silent	SNP	G	G	A	rs72648978	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	46	106	0	0.446602	0	G|0.927;A|0.073	0.073	strong	.	TTN	18412	.	NM_001267550	exon85	c.C24516T	p.T8172T	CACAAAGGTGGCT	.	PASS	Atlas-SNP
NUP54	53371	hgsc.bcm.edu	37	4	77065580	77065580	+	Silent	SNP	T	T	C	rs11558469	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	95	183	0	0.56213	0	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	.	PASS	Atlas-SNP
SLC38A9	153129	hgsc.bcm.edu	37	5	54960673	54960673	+	Missense_Mutation	SNP	C	C	G	rs4865615	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	102	206	0	0.447368	0	C|0.435;G|0.565	0.565	strong	SLC38A9,colon,carcinoma,0,1	SLC38A9	50	1	NM_173514	exon8	c.G545C	p.S182T	TCCCAGCTAGTGG	.	PASS	Atlas-SNP
APOBEC1	339	hgsc.bcm.edu	37	12	7805236	7805236	+	Missense_Mutation	SNP	C	C	G	rs2302515	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	64	80	0	1	0	C|0.248;G|0.752	0.752	strong	APOBEC1,NS,carcinoma,-1,1	APOBEC1	43	1	NM_001644	exon3	c.G240C	p.M80I	GCAGCTCATGGAT	.	PASS	Atlas-SNP
CBR3	874	hgsc.bcm.edu	37	21	37507501	37507501	+	Missense_Mutation	SNP	G	G	A	rs8133052	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	13	10	25	0	0.769231	0	G|0.602;A|0.398	0.398	strong	CBR3,NS,carcinoma,0,1	CBR3	11	1	NM_001236	exon1	c.G11A	p.C4Y	CGTCCTGCAGCCG	.	PASS	Atlas-SNP
OR4C11	219429	hgsc.bcm.edu	37	11	55371807	55371807	+	Missense_Mutation	SNP	A	A	T	rs11230346	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	76	74	0	0.452381	0	A|0.734;T|0.266	0.266	strong	OR4C11,colon,carcinoma,0,1	OR4C11	73	1	NM_001004700	exon1	c.T43A	p.L15I	GTGTTAATCCTAA	.	PASS	Atlas-SNP
PADI2	11240	hgsc.bcm.edu	37	1	17405809	17405809	+	Silent	SNP	G	G	A	rs2057096	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	69	74	0	1	0	G|0.520;A|0.480	0.480	strong	.	PADI2	72	.	NM_007365	exon11	c.C1260T	p.N420N	CTTGCCGTTCACG	.	PASS	Atlas-SNP
PPP6C	5537	hgsc.bcm.edu	37	9	127951863	127951863	+	Silent	SNP	G	G	A	rs466994	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	28	37	0	0.56	0	G|0.563;A|0.437	0.437	strong	PPP6C_ENST00000451402,NS,carcinoma,0,1	PPP6C	108	1	NM_001123355	exon1	c.C135T	p.F45F	AGAAAGGAAGGGC	.	PASS	Atlas-SNP
SERPINA9	327657	hgsc.bcm.edu	37	14	94931105	94931105	+	Missense_Mutation	SNP	A	A	G	rs11628722	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	97	151	0	0.989796	0	A|0.315;G|0.685	0.685	strong	SERPINA9_ENST00000337425,colon,carcinoma,0,4	SERPINA9	105	4	NM_175739	exon4	c.T1043C	p.V348A	TCAAAGACATTTT	.	PASS	Atlas-SNP
GPR153	387509	hgsc.bcm.edu	37	1	6314822	6314822	+	Silent	SNP	T	T	C	rs11590458	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	45	145	0	0.326087	0	T|0.282;C|0.718	0.718	strong	.	GPR153	44	.	NM_207370	exon2	c.A144G	p.T48T	CGCGAGTGTACAC	.	PASS	Atlas-SNP
OR8J3	81168	hgsc.bcm.edu	37	11	55904382	55904382	+	Missense_Mutation	SNP	A	A	C	rs17150102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	101	219	0	0.485577	0	A|0.900;C|0.100	0.100	strong	OR8J3,NS,carcinoma,0,1	OR8J3	112	1	NM_001004064	exon1	c.T813G	p.D271E	CATCTTATCAGTA	.	PASS	Atlas-SNP
OR13C9	286362	hgsc.bcm.edu	37	9	107380215	107380215	+	Missense_Mutation	SNP	T	T	A	rs993658	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	623	310	621	1	0.497592	0.00161031	T|0.743;A|0.257	0.257	strong	OR13C9,colon,carcinoma,+2,1	OR13C9	42	1	NM_001001956	exon1	c.A271T	p.T91S	AAATGGTCTTTCT	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32609965	32609965	+	Missense_Mutation	SNP	C	C	A	rs7990	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	97	134	0	0.535912	0	C|0.928;A|0.072	0.072	strong	.	HLA-DQA1	52	.	NM_002122	exon3	c.C548A	p.A183D	CTTCTGCTGATGA	.	PASS	Atlas-SNP
PLAT	5327	hgsc.bcm.edu	37	8	42044954	42044954	+	Silent	SNP	G	G	A	rs1058720	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	16	51	0	0.484848	0	G|0.488;A|0.512	0.512	strong	.	PLAT	62	.	NM_000930	exon6	c.C501T	p.D167D	GATGGCGTCTGGC	.	PASS	Atlas-SNP
SAMD9	54809	hgsc.bcm.edu	37	7	92735154	92735154	+	Missense_Mutation	SNP	G	G	A	rs147157740	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	105	161	0	0.483871	0	G|0.995;A|0.005	0.005	strong	.	SAMD9	239	.	NM_001193307	exon2	c.C257T	p.S86F	ATCTTAGATGTCT	.	PASS	Atlas-SNP
TMEM2	23670	hgsc.bcm.edu	37	9	74349846	74349846	+	Missense_Mutation	SNP	A	A	T	rs25695	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	84	143	0	0.488372	0	A|0.936;T|0.064	0.064	strong	.	TMEM2	112	.	NM_013390	exon6	c.T1269A	p.D423E	ACTAACATCATCT	.	PASS	Atlas-SNP
C3orf14	57415	hgsc.bcm.edu	37	3	62319048	62319048	+	Missense_Mutation	SNP	A	A	G	rs114729571	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	28	29	0	0.622222	0	A|0.977;G|0.023	0.023	strong	.	C3orf14	10	.	NM_020685	exon5	c.A371G	p.N124S	TTCAAAATGAGGC	.	PASS	Atlas-SNP
PCDHB7	56129	hgsc.bcm.edu	37	5	140554606	140554606	+	Silent	SNP	T	T	C	rs11741863	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	99	156	0	0.373585	0	T|0.805;C|0.195	0.195	strong	PCDHB7,caecum,carcinoma,0,1	PCDHB7	231	1	NM_018940	exon1	c.T2190C	p.F730F	CCCCTTTCCACGA	.	PASS	Atlas-SNP
SLC28A2	9153	hgsc.bcm.edu	37	15	45554267	45554267	+	Missense_Mutation	SNP	C	C	A	rs1060896	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	76	169	0	0.484076	0	C|0.608;A|0.391	0.391	strong	SLC28A2,NS,carcinoma,+1,1	SLC28A2	64	1	NM_004212	exon4	c.C225A	p.S75R	CGCCAGCTTGTTC	.	PASS	Atlas-SNP
EMR1	2015	hgsc.bcm.edu	37	19	6921868	6921868	+	Missense_Mutation	SNP	G	G	A	rs7256147	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	56	114	0	0.394366	0	G|0.783;A|0.217	0.217	strong	.	EMR1	153	.	NM_001256253	exon14	c.G1765A	p.V589I	CTTGCCGTTATCA	.	PASS	Atlas-SNP
RGAG4	340526	hgsc.bcm.edu	37	X	71349774	71349774	+	Silent	SNP	T	T	C	rs12393722	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	68	117	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
EYS	346007	hgsc.bcm.edu	37	6	66005888	66005888	+	Missense_Mutation	SNP	C	C	T	rs9342464	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	99	101	0	0.961165	0	C|0.404;T|0.596	0.596	strong	.	EYS	527	.	NM_001142800	exon12	c.G1891A	p.G631S	GCAGACCGCTACA	.	PASS	Atlas-SNP
CHPF2	54480	hgsc.bcm.edu	37	7	150934975	150934975	+	Silent	SNP	C	C	G	rs2487154	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	39	57	0	0.513158	0	C|0.595;G|0.405	0.405	strong	.	CHPF2	52	.	NM_019015	exon4	c.C1527G	p.A509A	CGAGGCCTTTGCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	42	99	0	0.518519	0	A|0.878;C|0.085	0.085	strong	.	MCM9	73	.	NM_017696	exon12	c.T2660G	p.M887R	TCCAGCATTCTGT	.	PASS	Atlas-SNP
DEPTOR	64798	hgsc.bcm.edu	37	8	121013770	121013770	+	Missense_Mutation	SNP	A	A	G	rs2271900	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	17	42	0	0.566667	0	A|0.344;G|0.656	0.656	strong	.	DEPTOR	41	.	NM_022783	exon5	c.A611G	p.N204S	TGTCCAACAAGCA	.	PASS	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	37	1	156883493	156883493	+	Missense_Mutation	SNP	G	G	A	rs11264581	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	76	100	0	0.608	0	G|0.832;A|0.168	0.168	strong	.	PEAR1	118	.	NM_001080471	exon21	c.G2654A	p.R885H	GCAGCCGCCTGGA	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152683413	152683413	+	Silent	SNP	G	G	T	rs4407724	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	234	105	193	0	0.448718	0	G|0.332;T|0.668	0.668	strong	.	SYNE1	3227	.	NM_033071	exon64	c.C10212A	p.G3404G	TCGAACGCCATCC	.	PASS	Atlas-SNP
SBF2	81846	hgsc.bcm.edu	37	11	9879838	9879838	+	Missense_Mutation	SNP	C	C	T	rs7102464	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	90	108	0	0.989011	0	C|0.933;T|0.067	0.067	strong	.	SBF2	146	.	NM_030962	exon18	c.G2035A	p.E679K	CCTGTTCCTGCAC	.	PASS	Atlas-SNP
CARS2	79587	hgsc.bcm.edu	37	13	111340342	111340342	+	Silent	SNP	G	G	A	rs2304767	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	38	90	0	0.535211	0	G|0.791;A|0.209	0.209	strong	.	CARS2	37	.	NM_024537	exon4	c.C417T	p.L139L	ACTGGCGAGGGAA	.	PASS	Atlas-SNP
FLYWCH1	84256	hgsc.bcm.edu	37	16	2983138	2983138	+	Silent	SNP	C	C	T	rs2074363	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	37	74	0	0.973684	0	C|0.877;T|0.123	0.123	strong	.	FLYWCH1	27	.	NM_020912	exon5	c.C801T	p.A267A	ACAGGCCCGGCCC	.	PASS	Atlas-SNP
RECQL4	9401	hgsc.bcm.edu	37	8	145737816	145737816	+	Missense_Mutation	SNP	C	C	T	rs4251691	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	24	63	0	0.521739	0	C|0.624;T|0.376	0.376	strong	RECQL4,rectum,carcinoma,0,1	RECQL4	75	1	NM_004260	exon18	c.G3014A	p.R1005Q	AGAGCCCGCCGCA	.	PASS	Atlas-SNP
C1orf68	100129271	hgsc.bcm.edu	37	1	152692074	152692074	+	Missense_Mutation	SNP	G	G	C	rs1332500	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	204	168	0	0.985507	0	G|0.655;C|0.345	0.345	strong	C1orf68,NS,carcinoma,0,1	C1orf68	19	1	NM_001024679	exon1	c.G77C	p.S26T	AGGGTAGCAATGG	.	PASS	Atlas-SNP
DSC1	1823	hgsc.bcm.edu	37	18	28720147	28720147	+	Missense_Mutation	SNP	C	C	T	rs17800159	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	53	148	1	0.389706	0.00675676	C|0.860;T|0.140	0.140	strong	DSC1_ENST00000257198,NS,carcinoma,0,2	DSC1	240	2	NM_004948	exon10	c.G1378A	p.V460I	TTTTAACGGTGAC	.	scavenged	Atlas-SNP
SPATA31A3	727830	hgsc.bcm.edu	37	9	40702760	40702760	+	Missense_Mutation	SNP	T	T	G	rs192661010	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	787	279	832	0	0.354511	0	T|0.744;G|0.256	0.256	strong	FAM75A3_ENST00000356699,NS,carcinoma,+2,2	.	.	2	NM_001083124	exon4	c.T417G	p.H139Q	CTCTCATGAGCCT	.	scavenged	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7890026	7890026	+	Missense_Mutation	SNP	A	A	G	rs199947375	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	20	275	0	0.188679	0	.	.	weak	PER3,NS,carcinoma,0,4	PER3	95	4	NM_016831	exon18	c.A2992G	p.K998E	CCCATGAAGAATC	.	PASS	Atlas-SNP
ETS2	2114	hgsc.bcm.edu	37	21	40191431	40191431	+	Silent	SNP	T	T	G	rs457705	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	69	66	1	1	0.0151515	T|0.298;G|0.702	0.702	strong	ETS2_ENST00000360214,NS,carcinoma,0,2	ETS2	87	2	NM_001256295	exon9	c.T1236G	p.T412T	AGGGACTCCCAAA	.	scavenged	Atlas-SNP
OR51E1	143503	hgsc.bcm.edu	37	11	4674575	4674575	+	Silent	SNP	G	G	A	rs3817098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	73	101	0	0.480263	0	G|0.615;A|0.385	0.385	strong	.	OR51E1	67	.	NM_152430	exon2	c.G819A	p.P273P	CTCTCCGCTGCCC	.	PASS	Atlas-SNP
CPN2	1370	hgsc.bcm.edu	37	3	194061826	194061826	+	Missense_Mutation	SNP	C	C	T	rs11711157	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	103	116	1	0.980952	0.00862069	C|0.732;T|0.268	0.268	strong	.	CPN2	56	.	NM_001080513	exon2	c.G1606A	p.V536M	TAGACACGGTGAG	.	PASS	Atlas-SNP
FAM189A1	23359	hgsc.bcm.edu	37	15	29544656	29544656	+	Silent	SNP	T	T	C	rs4583203	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	240	172	0	0.995851	0	T|0.529;C|0.471	0.471	strong	FAM189A1,NS,carcinoma,-1,1	FAM189A1	20	1	NM_015307	exon3	c.A303G	p.A101A	ACACACTGCAGAA	.	PASS	Atlas-SNP
MYO15A	51168	hgsc.bcm.edu	37	17	18023897	18023897	+	Missense_Mutation	SNP	G	G	A	rs2955365	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	26	14	39	0	0.538462	0	G|0.485;A|0.515	0.515	strong	.	MYO15A	268	.	NM_016239	exon2	c.G1783A	p.A595T	CAGAAGGCCCGGG	.	PASS	Atlas-SNP
PCDHGC5	56097	hgsc.bcm.edu	37	5	140869003	140869003	+	Silent	SNP	T	T	C	rs1002519	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	37	107	0	0.355769	0	T|0.810;C|0.190	0.190	strong	PCDHGC5_ENST00000252087,NS,carcinoma,-1,2	PCDHGC5	199	2	NM_018929	exon1	c.T196C	p.L66L	CTGCAATTGGGCT	.	PASS	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109367844	109367844	+	Missense_Mutation	SNP	T	T	G	rs2693126		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1701	28	1913	54	0.0164609	0.0282279	.	.	weak	RANBP2_ENST00000283195,NS,carcinoma,0,6	RANBP2	488	6	NM_006267	exon10	c.T1398G	p.H466Q	GCCCCATGAAACC	.	scavenged	Atlas-SNP
ARMC1	55156	hgsc.bcm.edu	37	8	66525548	66525548	+	Silent	SNP	T	T	C	rs11559265	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	61	194	0	0.386076	0	T|0.731;C|0.269	0.269	strong	.	ARMC1	22	.	NM_018120	exon4	c.A396G	p.Q132Q	AAAAAATTGAGCT	.	PASS	Atlas-SNP
TOP3A	7156	hgsc.bcm.edu	37	17	18193941	18193941	+	Silent	SNP	G	G	A	rs2230154	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	41	103	0	0.341667	0	G|0.757;A|0.243	0.243	strong	TOP3A,NS,carcinoma,0,1	TOP3A	85	1	NM_004618	exon13	c.C1527T	p.D509D	CTCCCCGTCCACC	.	PASS	Atlas-SNP
PPIE	10450	hgsc.bcm.edu	37	1	40229368	40229368	+	Missense_Mutation	SNP	A	A	G	rs74400834	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	136	144	0	1	0	A|0.500;G|0.500	0.500	strong	.	PPIE	33	.	NM_203456	exon10	c.A845G	p.E282G	AACAAGAAGAGTC	.	PASS	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30893941	30893941	+	Missense_Mutation	SNP	G	G	A	rs4678	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	316	145	279	0	0.458861	0	G|0.856;A|0.144	0.144	strong	.	VARS2	60	.	NM_001167734	exon30	c.G3236A	p.R1079Q	ACCTCCGGCAGCT	.	PASS	Atlas-SNP
GATA5	140628	hgsc.bcm.edu	37	20	61048549	61048549	+	Silent	SNP	G	G	A	rs41305803	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	82	151	0	0.5	0	G|0.568;A|0.432	0.432	strong	.	GATA5	22	.	NM_080473	exon3	c.C609T	p.D203D	GGTGCCGTCTCGG	.	PASS	Atlas-SNP
FNDC8	54752	hgsc.bcm.edu	37	17	33454415	33454415	+	Silent	SNP	C	C	A	rs2306508	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	30	65	0	0.461538	0	C|0.608;A|0.392	0.392	strong	.	FNDC8	28	.	NM_017559	exon2	c.C564A	p.T188T	GCACACCGTCAAC	.	PASS	Atlas-SNP
TMEM132B	114795	hgsc.bcm.edu	37	12	125834395	125834395	+	Silent	SNP	T	T	C	rs3803155	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	92	160	0	0.481675	0	T|0.332;C|0.668	0.668	strong	.	TMEM132B	207	.	NM_052907	exon2	c.T450C	p.S150S	TGACAGTGACCTT	.	PASS	Atlas-SNP
BDP1	55814	hgsc.bcm.edu	37	5	70798541	70798541	+	Missense_Mutation	SNP	A	A	G	rs36009281	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	62	118	0	0.496	0	A|0.949;G|0.051	0.051	strong	.	BDP1	204	.	NM_018429	exon15	c.A2164G	p.K722E	GAAAGAAAAGAAA	.	PASS	Atlas-SNP
FAM13A	10144	hgsc.bcm.edu	37	4	89950630	89950630	+	Silent	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	17	124	0	0.124088	0	.	.	none	.	FAM13A	181	.	NM_014883	exon2	c.G198C	p.V66V	ATATTCCACTATA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	111	257	0	0.486842	0	C|0.735;G|0.265	0.265	strong	.	ADAMTS13	113	.	NM_139027	exon12	c.C1342G	p.Q448E	ATGTCGCAACAGT	.	PASS	Atlas-SNP
SLC22A4	6583	hgsc.bcm.edu	37	5	131676320	131676320	+	Missense_Mutation	SNP	C	C	T	rs1050152	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	67	182	0	0.331683	0	C|0.748;T|0.252	0.252	strong	SLC22A4,NS,carcinoma,-2,1	SLC22A4	45	1	NM_003059	exon9	c.C1507T	p.L503F	GGAATCCTCACCC	.	PASS	Atlas-SNP
RLN1	6013	hgsc.bcm.edu	37	9	5335590	5335590	+	Silent	SNP	T	T	G	rs35426888	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	15	64	0	0.375	0	C|0.005;G|0.002;T|0.993	0.002	strong	.	RLN1	16	.	NM_006911	exon2	c.A219C	p.V73V	GGATGGTACAATT	.	PASS	Atlas-SNP
PCMT1	5110	hgsc.bcm.edu	37	6	150114745	150114745	+	Missense_Mutation	SNP	G	G	A	rs4816	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	80	125	0	0.533333	0	G|0.418;A|0.582	0.582	strong	.	PCMT1	27	.	NM_005389	exon5	c.G532A	p.V178I	GACTCAGTAAATA	.	PASS	Atlas-SNP
PNPLA3	80339	hgsc.bcm.edu	37	22	44328832	44328832	+	Silent	SNP	C	C	T	rs34179073	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	263	168	300	0	0.638783	0	C|0.935;G|0.000;T|0.064	0.064	strong	.	PNPLA3	53	.	NM_025225	exon4	c.C561T	p.F187F	CCCCTTCTATGGG	.	PASS	Atlas-SNP
EGR4	1961	hgsc.bcm.edu	37	2	73518867	73518867	+	Silent	SNP	G	G	A	rs7558708	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	13	46	0	0.541667	0	G|0.791;A|0.209	0.209	strong	.	EGR4	52	.	NM_001965	exon2	c.C1488T	p.R496R	GTCGGAGCGCGCA	.	PASS	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	37	10	26446312	26446312	+	Missense_Mutation	SNP	G	G	A	rs3758449	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	95	193	0	0.521978	0	G|0.512;N|0.000	.	strong	MYO3A,rectum,carcinoma,0,6	MYO3A	371	6	NM_017433	exon26	c.G2867A	p.S956N	CAAATAGTGAGCG	.	PASS	Atlas-SNP
LAMC3	10319	hgsc.bcm.edu	37	9	133927878	133927878	+	Missense_Mutation	SNP	A	A	G	rs10901333	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	92	98	0	1	0	A|0.520;G|0.480	0.480	strong	.	LAMC3	167	.	NM_006059	exon10	c.A1631G	p.E544G	CTTCAGAGAAGTT	.	PASS	Atlas-SNP
PRKRA	8575	hgsc.bcm.edu	37	2	179300979	179300979	+	Missense_Mutation	SNP	A	A	T	rs77419724	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	51	75	0	0.395349	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
ANKK1	255239	hgsc.bcm.edu	37	11	113270160	113270160	+	Missense_Mutation	SNP	A	A	G	rs2734849	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	37	77	0	0.402174	0	A|0.725;G|0.275	0.275	strong	.	ANKK1	83	.	NM_178510	exon8	c.A1469G	p.H490R	ACCTGCATGAGGC	.	PASS	Atlas-SNP
CYP2C8	1558	hgsc.bcm.edu	37	10	96798749	96798749	+	Missense_Mutation	SNP	T	T	C	rs10509681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	46	105	0	0.414414	0	T|0.946;C|0.054	0.054	strong	.	CYP2C8	73	.	NM_000770	exon8	c.A1196G	p.K399R	AATTCTTTGTCAT	.	PASS	Atlas-SNP
CES1	1066	hgsc.bcm.edu	37	16	55862836	55862836	+	Silent	SNP	G	G	A	rs3826191	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	20	103	0	0.190476	0	G|0.500;A|0.500	0.500	strong	CES1_ENST00000360526,colon,carcinoma,0,1	CES1	78	1	NM_001025195	exon2	c.C103T	p.L35L	TCCCCAGCACTTT	.	PASS	Atlas-SNP
OTOF	9381	hgsc.bcm.edu	37	2	26695500	26695500	+	Missense_Mutation	SNP	A	A	C	rs41288773	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	33	58	0	0.452055	0	A|0.986;C|0.014	0.014	strong	.	OTOF	524	.	NM_194248	exon30	c.T3751G	p.C1251G	CACGGCAGCGCCG	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88537035	88537035	+	Missense_Mutation	SNP	A	A	G	rs202210195	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	295	81	255	1	0.274576	0.00392157	.	.	weak	DSPP,NS,carcinoma,-1,1	DSPP	174	1	NM_014208	exon5	c.A3221G	p.D1074G	GCAGTGACAGCAG	.	scavenged	Atlas-SNP
PLEKHG2	64857	hgsc.bcm.edu	37	19	39909394	39909394	+	Silent	SNP	C	C	T	rs146672674	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	39	81	0	0.458824	0	C|0.999;T|0.001	0.001	strong	.	PLEKHG2	329	.	NM_022835	exon10	c.C1104T	p.S368S	CGTGAGCGAGAGT	.	PASS	Atlas-SNP
OR4X1	390113	hgsc.bcm.edu	37	11	48285906	48285906	+	Missense_Mutation	SNP	C	C	T	rs16905753	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	88	202	1	0.475676	0.00495049	C|0.822;T|0.178	0.178	strong	OR4X1,NS,adenoma,-1,2	OR4X1	75	2	NM_001004726	exon1	c.C494T	p.P165L	AGCTCCCGTTCTG	.	scavenged	Atlas-SNP
NPR3	4883	hgsc.bcm.edu	37	5	32786389	32786389	+	Missense_Mutation	SNP	A	A	G	rs2270915	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	117	230	0	0.524664	0	A|0.833;G|0.167	0.167	strong	.	NPR3	65	.	NM_001204375	exon8	c.A1564G	p.N522D	GAAAGTAACCTTG	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29886354	29886354	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	77	114	0	0.531034	0	.	.	none	.	NEFH	178	.	NM_021076	exon4	c.G2725A	p.E909K	GAGAAGGAGGCTC	.	PASS	Atlas-SNP
PAPD7	11044	hgsc.bcm.edu	37	5	6748659	6748659	+	Silent	SNP	T	T	C	rs274681	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	92	209	0	0.348485	0	T|0.392;C|0.608	0.608	strong	PAPD7,colon,carcinoma,0,2	PAPD7	69	2	NM_001171805	exon8	c.T792C	p.A264A	CCATGCTGTGTCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	35	78	0	0.388889	0	A|0.657;G|0.343	0.343	strong	.	FOLH1	141	.	NM_004476	exon2	c.T223C	p.Y75H	CTTACTATAAGAA	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121415610	121415610	+	Missense_Mutation	SNP	G	G	A	rs33988592	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	384	181	352	0	0.471354	0	G|0.780;A|0.220	0.220	strong	.	GOLGB1	319	.	NM_001256486	exon13	c.C3760T	p.P1254S	TGCTTGGGAGTTT	.	PASS	Atlas-SNP
CCDC169	728591	hgsc.bcm.edu	37	13	36801415	36801415	+	Missense_Mutation	SNP	C	C	T	rs9546785	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	279	134	265	0	0.480287	0	C|0.624;T|0.376	0.376	strong	.	CCDC169	20	.	NM_001198908	exon8	c.G649A	p.G217R	TTTGTCCGAGGCA	.	PASS	Atlas-SNP
OR10H2	26538	hgsc.bcm.edu	37	19	15839459	15839459	+	Silent	SNP	G	G	A	rs11669315	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	114	226	0	0.478992	0	G|0.839;A|0.161	0.161	strong	.	OR10H2	59	.	NM_013939	exon1	c.G606A	p.L202L	GGGCTTGGTATGT	.	PASS	Atlas-SNP
COL23A1	91522	hgsc.bcm.edu	37	5	177675217	177675217	+	Silent	SNP	C	C	T	rs2913851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306	89	313	0	0.29085	0	C|0.668;T|0.332	0.332	strong	COL23A1,colon,carcinoma,0,1	COL23A1	47	1	NM_173465	exon20	c.G1188A	p.A396A	GTCAGACGCCGAC	.	PASS	Atlas-SNP
CLIC3	9022	hgsc.bcm.edu	37	9	139890105	139890105	+	Silent	SNP	C	C	G	rs141765089	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	44	75	0	0.647059	0	C|0.991;G|0.009	0.009	strong	.	CLIC3	13	.	NM_004669	exon2	c.G138C	p.T46T	CCTGCGCGTGTCC	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17108135	17108135	+	Missense_Mutation	SNP	C	C	T	rs3745340	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	161	209	0	0.936047	0	C|0.647;T|0.353	0.353	strong	.	CPAMD8	192	.	NM_015692	exon11	c.G1022A	p.R341Q	AAGTCCCGGGAGC	.	PASS	Atlas-SNP
FXYD4	53828	hgsc.bcm.edu	37	10	43871158	43871158	+	Missense_Mutation	SNP	G	G	A	rs41307500	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	37	106	0	0.411111	0	G|0.972;A|0.028	0.028	strong	.	FXYD4	9	.	NM_001184963	exon7	c.G188A	p.C63Y	GCAAATGCAAGAG	.	PASS	Atlas-SNP
OR1I1	126370	hgsc.bcm.edu	37	19	15198292	15198292	+	Missense_Mutation	SNP	C	C	G	rs8104843	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	151	124	1	1	0.00806452	C|0.301;G|0.699	0.699	strong	.	OR1I1	58	.	NM_001004713	exon1	c.C416G	p.P139R	GCTCCCCTGTCTG	.	PASS	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	37	1	154842330	154842330	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	7	64	0	0.0958904	0	.	.	none	KCNN3,rectum,carcinoma,0,1	KCNN3	141	1	NM_001204087	exon1	c.A111G	p.Q37Q	CTGCTGTTGCTGC	.	PASS	Atlas-SNP
C19orf71	100128569	hgsc.bcm.edu	37	19	3543397	3543397	+	Missense_Mutation	SNP	C	C	T	rs12608919	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	44	71	0	0.628571	0	C|0.611;T|0.389	0.389	strong	C19orf71,colon,carcinoma,0,1	C19orf71	12	1	NM_001135580	exon2	c.C248T	p.P83L	GGGCCCCGGCCAG	.	PASS	Atlas-SNP
CCDC88A	55704	hgsc.bcm.edu	37	2	55615950	55615950	+	Silent	SNP	T	T	C	rs147639776	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	304	141	262	0	0.463816	0	T|0.998;C|0.002	0.002	strong	.	CCDC88A	336	.	NM_018084	exon3	c.A237G	p.L79L	AATGGATAGATTG	.	PASS	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	37	19	41354533	41354533	+	Missense_Mutation	SNP	A	A	T	rs1801272	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	52	114	0	0.464286	0	A|0.983;T|0.017	0.017	strong	.	CYP2A6	69	.	NM_000762	exon3	c.T479A	p.L160H	CCCCGGAGGGCGT	.	PASS	Atlas-SNP
PTK2B	2185	hgsc.bcm.edu	37	8	27308585	27308585	+	Missense_Mutation	SNP	A	A	C	rs751019	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	74	114	0	0.496644	0	A|0.601;C|0.399	0.399	strong	.	PTK2B	304	.	NM_173174	exon31	c.A2513C	p.K838T	ATGATAAGTCCCC	.	PASS	Atlas-SNP
TRIM51	84767	hgsc.bcm.edu	37	11	55652963	55652963	+	Missense_Mutation	SNP	A	A	G	rs2063276	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	139	297	0	0.469595	0	A|0.360;G|0.640	0.640	strong	.	.	.	.	NM_032681	exon2	c.A59G	p.N20S	GCATGAACTACTT	.	PASS	Atlas-SNP
SLC5A8	160728	hgsc.bcm.edu	37	12	101587518	101587518	+	Missense_Mutation	SNP	C	C	T	rs1709189	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	72	175	0	0.455696	0	C|0.745;T|0.255	0.255	strong	.	SLC5A8	102	.	NM_145913	exon5	c.G577A	p.V193I	TCCCAACTTGAAA	.	PASS	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	37	17	29161358	29161358	+	Missense_Mutation	SNP	C	C	T	rs3816780	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	126	110	0	1	0	C|0.859;T|0.141	0.141	strong	.	ATAD5	150	.	NM_024857	exon2	c.C259T	p.P87S	AAGTCACCTGAAT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	100	228	0	0.537634	0	G|0.720;A|0.280	0.280	strong	.	CTBS	24	.	NM_004388	exon4	c.C591T	p.I197I	ATCTGCGATTCCA	.	PASS	Atlas-SNP
CREBZF	58487	hgsc.bcm.edu	37	11	85374993	85374993	+	Silent	SNP	C	C	T	rs1192	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	67	118	0	0.540323	0	C|0.837;T|0.163	0.163	strong	.	CREBZF	26	.	NM_001039618	exon1	c.G927A	p.P309P	TCCCACCGGCAGA	.	PASS	Atlas-SNP
TAS2R8	50836	hgsc.bcm.edu	37	12	10958896	10958896	+	Missense_Mutation	SNP	T	T	G	rs143804727	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	44	80	0	0.564103	0	T|0.987;G|0.013	0.013	strong	TAS2R8,colon,carcinoma,0,1	TAS2R8	42	1	NM_023918	exon1	c.A684C	p.E228D	ATGAACTTCTGTG	.	PASS	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38563725	38563725	+	Silent	SNP	G	G	A	rs2835655	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	231	99	187	0	0.428571	0	G|0.653;A|0.347	0.347	strong	.	TTC3	182	.	NM_001001894	exon40	c.G5115A	p.K1705K	AGCAAAGGTAAGT	.	PASS	Atlas-SNP
TET2	54790	hgsc.bcm.edu	37	4	106183003	106183003	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	28	269	0	0.110672	0	.	.	none	.	TET2	1762	.	NM_001127208	exon8	c.C4042A	p.Q1348K	AATAATCAGGTAA	.	PASS	Atlas-SNP
STRA8	346673	hgsc.bcm.edu	37	7	134925411	134925411	+	Silent	SNP	G	G	A	rs7805859	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	246	108	212	0	0.439024	0	G|0.591;A|0.409	0.409	strong	.	STRA8	39	.	NM_182489	exon2	c.G201A	p.A67A	GGCAGCGCTCTTC	.	PASS	Atlas-SNP
MTMR3	8897	hgsc.bcm.edu	37	22	30415983	30415983	+	Missense_Mutation	SNP	C	C	T	rs61737780	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	70	148	0	0.434783	0	C|0.992;T|0.008	0.008	strong	.	MTMR3	106	.	NM_021090	exon17	c.C2335T	p.L779F	AGTTCTCTCCAGG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32552039	32552039	+	Missense_Mutation	SNP	C	C	T	rs150747106	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	22	74	0	0.183333	0	C|0.831;T|0.169	0.169	strong	.	HLA-DRB1	41	.	NM_002124	exon2	c.G217A	p.V73M	CCCCCACGTCGCT	.	PASS	Atlas-SNP
HBS1L	10767	hgsc.bcm.edu	37	6	135287597	135287597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	20	70	0	0.37037	0	.	.	none	.	HBS1L	75	.	NM_006620	exon17	c.G1913A	p.G638D	TTCTGGCCTTTAG	.	PASS	Atlas-SNP
LIG1	3978	hgsc.bcm.edu	37	19	48626236	48626236	+	Silent	SNP	A	A	G	rs116999747	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	57	136	0	0.478992	0	A|0.997;G|0.003	0.003	strong	.	LIG1	151	.	NM_000234	exon23	c.T2187C	p.V729V	GGCATCAACATCC	.	PASS	Atlas-SNP
KCNH6	81033	hgsc.bcm.edu	37	17	61623052	61623052	+	Missense_Mutation	SNP	C	C	T	rs35819807	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	60	95	0	0.530973	0	C|0.804;T|0.196	0.196	strong	.	KCNH6	122	.	NM_030779	exon14	c.C2774T	p.T925M	TGGCAACGGACAA	.	PASS	Atlas-SNP
CC2D1A	54862	hgsc.bcm.edu	37	19	14038791	14038791	+	Missense_Mutation	SNP	C	C	T	rs2305777	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	33	62	0	0.515625	0	C|0.836;T|0.164	0.164	strong	.	CC2D1A	67	.	NM_017721	exon23	c.C2402T	p.T801M	TGGAGACGACGAC	.	PASS	Atlas-SNP
PAF1	54623	hgsc.bcm.edu	37	19	39876556	39876556	+	Silent	SNP	C	C	T	rs117151141	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	13	26	0	0.481481	0	C|0.981;T|0.019	0.019	strong	.	PAF1	43	.	NM_001256826	exon13	c.G1457A	p.X486X	AAGGCTCACAAAC	.	PASS	Atlas-SNP
SPOCK3	50859	hgsc.bcm.edu	37	4	167656073	167656073	+	Silent	SNP	C	C	T	rs1057377	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	426	201	406	0	0.471831	0	C|0.843;T|0.157	0.157	strong	.	SPOCK3	90	.	NM_016950	exon12	c.G1310A	p.X437X	ATCAATCAAATGT	.	PASS	Atlas-SNP
MLC1	23209	hgsc.bcm.edu	37	22	50515843	50515843	+	Missense_Mutation	SNP	C	C	A	rs6010260	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	96	129	0	0.761905	0	C|0.898;A|0.102	0.102	strong	.	MLC1	48	.	NM_015166	exon6	c.G512T	p.C171F	TTCTTGCAGTCCT	.	PASS	Atlas-SNP
C15orf48	84419	hgsc.bcm.edu	37	15	45725175	45725175	+	Silent	SNP	C	C	G	rs149677351	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	36	66	0	0.679245	0	C|0.996;G|0.004	0.004	strong	.	C15orf48	9	.	NM_197955	exon5	c.C213G	p.P71P	GAAACCCATTGAA	.	PASS	Atlas-SNP
OR6N1	128372	hgsc.bcm.edu	37	1	158735691	158735691	+	Missense_Mutation	SNP	T	T	C	rs857825	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	168	158	0	0.994083	0	T|0.285;C|0.715	0.715	strong	OR6N1,NS,adenoma,0,1	OR6N1	96	1	NM_001005185	exon1	c.A782G	p.Q261R	TTCAGCTGCACAT	.	PASS	Atlas-SNP
SEMA4D	10507	hgsc.bcm.edu	37	9	92003679	92003679	+	Missense_Mutation	SNP	C	C	T	rs11526468	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	17	34	0	0.548387	0	C|0.774;T|0.226	0.226	strong	.	SEMA4D	81	.	NM_006378	exon13	c.G979A	p.A327T	TGTAGGCGCACAC	.	PASS	Atlas-SNP
CYP2E1	1571	hgsc.bcm.edu	37	10	135351362	135351362	+	Silent	SNP	T	T	C	rs2515641	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	48	87	0	0.457143	0	T|0.288;C|0.712	0.712	strong	.	CYP2E1	69	.	NM_000773	exon8	c.T1263C	p.F421F	AAAGTTTAAGTAC	.	PASS	Atlas-SNP
GCC1	79571	hgsc.bcm.edu	37	7	127222521	127222521	+	Silent	SNP	G	G	A	rs33973710	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	46	83	0	0.455446	0	G|0.837;A|0.163	0.163	strong	.	GCC1	83	.	NM_024523	exon2	c.C1875T	p.G625G	AGGACCGCCACCA	.	PASS	Atlas-SNP
KRT75	9119	hgsc.bcm.edu	37	12	52827608	52827608	+	Missense_Mutation	SNP	C	C	T	rs2232387	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	107	208	0	0.486364	0	C|0.864;T|0.136	0.136	strong	.	KRT75	75	.	NM_004693	exon1	c.G481A	p.A161T	AGGAGGCGAACTT	.	PASS	Atlas-SNP
KCNQ4	9132	hgsc.bcm.edu	37	1	41285087	41285087	+	Silent	SNP	T	T	C	rs4660468	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	106	198	0	0.569892	0	C|0.623;N|0.000	0.623	strong	.	KCNQ4	58	.	NM_004700	exon5	c.T777C	p.A259A	CCTGGCTGAGAAG	.	PASS	Atlas-SNP
GJA9	81025	hgsc.bcm.edu	37	1	39340282	39340282	+	Missense_Mutation	SNP	C	C	T	rs880303	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	35	92	0	0.472973	0	C|0.662;N|0.000	.	strong	.	GJA9	55	.	NM_030772	exon2	c.G1489A	p.V497I	ACACTACGTGATT	.	PASS	Atlas-SNP
MYO1H	283446	hgsc.bcm.edu	37	12	109835590	109835590	+	Silent	SNP	A	A	G	rs11611358	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	49	74	0	0.5	0	A|0.742;G|0.258	0.258	strong	MYO1H,colon,carcinoma,0,1	MYO1H	98	1	NM_001101421	exon4	c.A495G	p.K165K	TGGGAAATACATG	.	PASS	Atlas-SNP
IL2RA	3559	hgsc.bcm.edu	37	10	6067969	6067969	+	Silent	SNP	C	C	T	rs2228150	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	102	266	0	0.428571	0	T|0.080;G|0.006	0.080	strong	.	IL2RA	37	.	NM_000417	exon2	c.G84A	p.P28P	CTCTGGCGGGTCA	.	PASS	Atlas-SNP
TDG	6996	hgsc.bcm.edu	37	12	104376608	104376608	+	Silent	SNP	G	G	A	rs61937629	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	379	41	417	0	0.108179	0	G|0.924;A|0.076	0.076	strong	TDG,NS,carcinoma,0,1	TDG	43	1	NM_003211	exon5	c.G510A	p.E170E	CAGTGAGGTCCAG	.	PASS	Atlas-SNP
NXPE4	54827	hgsc.bcm.edu	37	11	114441936	114441936	+	Silent	SNP	A	A	G	rs12421748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	114	205	0	0.518182	0	A|0.894;G|0.106	0.106	strong	.	.	.	.	NM_001077639	exon6	c.T1359C	p.N453N	GTGGACATTGAGG	.	PASS	Atlas-SNP
ZNF142	7701	hgsc.bcm.edu	37	2	219507302	219507302	+	Missense_Mutation	SNP	C	C	T	rs3821033	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	45	107	0	0.391304	0	C|0.924;T|0.076	0.076	strong	.	ZNF142	190	.	NM_001105537	exon8	c.G3937A	p.A1313T	GCTGTGCAGGCTC	.	PASS	Atlas-SNP
KATNAL1	84056	hgsc.bcm.edu	37	13	30784566	30784566	+	Silent	SNP	A	A	G	rs11617724	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	206	261	0	0.985646	0	A|0.940;G|0.060	0.060	strong	.	KATNAL1	53	.	NM_001014380	exon10	c.T1161C	p.A387A	AAGCTCAGCTCTT	.	PASS	Atlas-SNP
HEATR5B	54497	hgsc.bcm.edu	37	2	37230734	37230734	+	Silent	SNP	C	C	T	rs17497654	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	47	86	0	0.456311	0	C|0.834;T|0.166	0.166	strong	.	HEATR5B	185	.	NM_019024	exon31	c.G5001A	p.Q1667Q	TACTATCTGTTGT	.	PASS	Atlas-SNP
ADIRF	10974	hgsc.bcm.edu	37	10	88730312	88730312	+	Silent	SNP	T	T	C	rs4869	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	75	165	0	0.441176	0	T|0.489;C|0.511	0.511	strong	C10orf116,NS,carcinoma,0,1	.	.	1	NM_006829	exon3	c.T204C	p.I68I	TGGGATTGGGAAA	.	PASS	Atlas-SNP
RSU1	6251	hgsc.bcm.edu	37	10	16794623	16794623	+	Silent	SNP	C	C	T	rs10445	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	75	70	0	0.986842	0	C|0.887;T|0.113	0.113	strong	.	RSU1	31	.	NM_012425	exon7	c.G513A	p.S171S	AGGCAGCGAGATC	.	PASS	Atlas-SNP
KCNJ11	3767	hgsc.bcm.edu	37	11	17409069	17409069	+	Silent	SNP	G	G	A	rs5218	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	55	63	0	1	0	G|0.773;A|0.227	0.227	strong	.	KCNJ11	39	.	NM_000525	exon1	c.C570T	p.A190A	GCGCAGGGCGATC	.	PASS	Atlas-SNP
HK2	3099	hgsc.bcm.edu	37	2	75107651	75107651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	22	135	0	0.108374	0	.	.	none	HK2,NS,carcinoma,0,1	HK2	85	1	NM_000189	exon10	c.G1525A	p.V509I	GCCCCCGTCAAGA	.	PASS	Atlas-SNP
LARP1	23367	hgsc.bcm.edu	37	5	154092616	154092616	+	Missense_Mutation	SNP	C	C	T	rs148235669	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	90	285	0	0.334572	0	C|0.998;T|0.002	0.002	strong	.	LARP1	187	.	NM_015315	exon1	c.C131T	p.A44V	CAGCTGCCCCGAG	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88495654	88495654	+	Silent	SNP	A	A	G	rs12927001	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	19	136	0	0.38	0	A|0.134;G|0.866	0.866	strong	.	ZNF469	121	.	NM_001127464	exon1	c.A1776G	p.P592P	GTCCCCACTGCCG	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43506158	43506158	+	Silent	SNP	T	T	C	rs2304328	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	34	37	0	0.62963	0	T|0.570;C|0.430	0.430	strong	.	HECW1	540	.	NM_015052	exon15	c.T2904C	p.H968H	GCTACATGCCAAT	.	PASS	Atlas-SNP
ADAMTS8	11095	hgsc.bcm.edu	37	11	130281488	130281488	+	Missense_Mutation	SNP	G	G	A	rs2131535	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	90	109	0	1	0	G|0.243;A|0.757	0.757	strong	.	ADAMTS8	172	.	NM_007037	exon6	c.C1574T	p.A525V	CCATCTGCCACGG	.	PASS	Atlas-SNP
COL4A2	1284	hgsc.bcm.edu	37	13	111102042	111102042	+	Silent	SNP	G	G	A	rs76425569	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	23	59	0	0.403509	0	G|0.729;A|0.271	0.271	strong	.	COL4A2	178	.	NM_001846	exon19	c.G1095A	p.P365P	TGACCCGGGATTC	.	PASS	Atlas-SNP
ERBB4	2066	hgsc.bcm.edu	37	2	212251864	212251864	+	Silent	SNP	T	T	C	rs3748962	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	137	245	0	0.515038	0	T|0.756;C|0.244	0.244	strong	.	ERBB4	480	.	NM_005235	exon27	c.A3195G	p.V1065V	TCGGTATACAAAC	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	37	8	11188743	11188743	+	Missense_Mutation	SNP	C	C	T	rs13260331	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	68	154	0	0.539683	0	C|0.705;T|0.295	0.295	strong	.	.	.	.	NM_054028	exon1	c.C128T	p.A43V	TGGTGGCCCTGCT	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	37	1	41990461	41990461	+	Silent	SNP	G	G	A	rs35122733	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	83	197	0	0.592857	0	G|0.956;A|0.044	0.044	strong	.	HIVEP3	235	.	NM_024503	exon6	c.C5328T	p.H1776H	GTCAGTGTGGGTG	.	PASS	Atlas-SNP
TBX15	6913	hgsc.bcm.edu	37	1	119427454	119427454	+	Silent	SNP	G	G	A	rs12569041	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	176	263	0	0.972376	0	G|0.913;A|0.087	0.087	strong	TBX15,right_lower_lobe,carcinoma,-1,1	TBX15	95	1	NM_152380	exon8	c.C1392T	p.S464S	TGAAGGGCTAATC	.	PASS	Atlas-SNP
PIGB	9488	hgsc.bcm.edu	37	15	55619796	55619796	+	Missense_Mutation	SNP	T	T	C	rs2290344	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	53	102	0	0.46087	0	T|0.805;C|0.195	0.195	strong	.	PIGB	36	.	NM_004855	exon4	c.T485C	p.M162T	CATTAATGAAGCA	.	PASS	Atlas-SNP
FLRT1	23769	hgsc.bcm.edu	37	11	63884027	63884027	+	Silent	SNP	C	C	T	rs614035	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	92	91	0	1	0	C|0.521;T|0.479	0.479	strong	.	FLRT1	46	.	NM_013280	exon2	c.C288T	p.A96A	CAACGCCGGCATC	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29839798	29839798	+	Silent	SNP	A	A	G	rs17834991	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	50	121	0	0.480769	0	A|0.839;G|0.161;T|0.000	0.161	strong	SVIL,NS,carcinoma,0,1	SVIL	226	1	NM_003174	exon8	c.T555C	p.Y185Y	GAGGGCATAGTCC	.	PASS	Atlas-SNP
SPTLC3	55304	hgsc.bcm.edu	37	20	13071816	13071816	+	Silent	SNP	C	C	T	rs6109692	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	88	195	0	0.455959	0	C|0.913;T|0.087	0.087	strong	.	SPTLC3	78	.	NM_018327	exon5	c.C693T	p.F231F	GGGATTCGCAACT	.	PASS	Atlas-SNP
MTMR4	9110	hgsc.bcm.edu	37	17	56585593	56585593	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	4	35	0	0.0952381	0	.	.	none	.	MTMR4	91	.	NM_004687	exon8	c.G594A	p.W198X	AGTGATCCACACA	.	PASS	Atlas-SNP
GDF3	9573	hgsc.bcm.edu	37	12	7842932	7842932	+	Missense_Mutation	SNP	C	C	T	rs12819884	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	72	183	0	0.476821	0	C|0.752;T|0.248	0.248	strong	GDF3,NS,adenoma,0,2	GDF3	68	2	NM_020634	exon2	c.G637A	p.G213R	TCACCCCTGAGTC	.	PASS	Atlas-SNP
AARS2	57505	hgsc.bcm.edu	37	6	44268371	44268371	+	Silent	SNP	T	T	C	rs325008	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	90	71	0	1	0	T|0.130;C|0.870	0.870	strong	.	AARS2	77	.	NM_020745	exon22	c.A2871G	p.S957S	CACTCGTGAGCCC	.	PASS	Atlas-SNP
C11orf30	56946	hgsc.bcm.edu	37	11	76257215	76257215	+	Silent	SNP	T	T	C	rs3753051	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	63	102	0	0.504	0	T|0.755;C|0.245	0.245	strong	C11orf30,NS,carcinoma,0,1	C11orf30	123	1	NM_020193	exon20	c.T3648C	p.T1216T	ATCCACTGTTGGC	.	PASS	Atlas-SNP
GCNT1	2650	hgsc.bcm.edu	37	9	79118329	79118329	+	Silent	SNP	G	G	A	rs1057406	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	283	116	240	0	0.409894	0	G|0.774;A|0.226	0.226	strong	.	GCNT1	52	.	NM_001490	exon4	c.G1032A	p.L344L	TGATCTGTCTGAC	.	PASS	Atlas-SNP
CYP39A1	51302	hgsc.bcm.edu	37	6	46609905	46609905	+	Missense_Mutation	SNP	C	C	T	rs2277119	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	123	115	0	1	0	C|0.767;T|0.232	0.232	strong	.	CYP39A1	41	.	NM_016593	exon2	c.G308A	p.R103H	CCTGTACGATAAA	.	PASS	Atlas-SNP
TNK1	8711	hgsc.bcm.edu	37	17	7287992	7287992	+	Silent	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	25	68	0	0.520833	0	.	.	none	.	TNK1	31	.	NM_003985	exon7	c.C1056A	p.L352L	GGCCCTCTACTCC	.	PASS	Atlas-SNP
RB1CC1	9821	hgsc.bcm.edu	37	8	53586706	53586706	+	Missense_Mutation	SNP	A	A	G	rs17337252	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	109	256	1	0.493213	0.00390625	A|0.533;G|0.467	0.467	strong	.	RB1CC1	163	.	NM_001083617	exon7	c.T701C	p.M234T	CTTTTCATCTCAG	.	PASS	Atlas-SNP
C5orf60	285679	hgsc.bcm.edu	37	5	179071892	179071892	+	Missense_Mutation	SNP	C	C	T	rs4990389	bycluster;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	8	194	4	0.0365297	0.0206186	C|0.994;T|0.006	0.006	strong	C5orf60,NS,carcinoma,0,2	C5orf60	24	2	NM_001142306	exon1	c.G130A	p.V44I	ACACAACAAAGAG	.	scavenged	Atlas-SNP
OR4D2	124538	hgsc.bcm.edu	37	17	56247101	56247101	+	Missense_Mutation	SNP	C	C	A	rs60994383	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	83	164	0	0.463687	0	C|0.745;A|0.255	0.255	strong	.	OR4D2	48	.	NM_001004707	exon1	c.C85A	p.L29I	CTGTTTCTAATGT	.	PASS	Atlas-SNP
SH3D21	79729	hgsc.bcm.edu	37	1	36773405	36773405	+	Silent	SNP	T	T	G	rs35343437	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	66	199	0	0.388235	0	T|0.555;G|0.445	0.445	strong	.	SH3D21	73	.	NM_001162530	exon6	c.T471G	p.P157P	CAGCCCTGGTCCC	.	PASS	Atlas-SNP
CEP350	9857	hgsc.bcm.edu	37	1	179989584	179989584	+	Missense_Mutation	SNP	G	G	C	rs6692219	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	41	104	0	0.336066	0	G|0.963;C|0.037	0.037	strong	.	CEP350	418	.	NM_014810	exon12	c.G2675C	p.R892T	CTGCCAGAATTCA	.	PASS	Atlas-SNP
GRB14	2888	hgsc.bcm.edu	37	2	165476253	165476253	+	Missense_Mutation	SNP	A	A	T	rs61748245	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	241	257	0	0.995868	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
ZNF236	7776	hgsc.bcm.edu	37	18	74680259	74680259	+	Silent	SNP	C	C	T	rs657066	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	26	64	0	0.351351	0	C|0.073;T|0.927	0.927	strong	.	ZNF236	325	.	NM_007345	exon31	c.C5502T	p.A1834A	GGAGGCCGCCGGC	.	PASS	Atlas-SNP
TRABD2B	388630	hgsc.bcm.edu	37	1	48459907	48459907	+	Silent	SNP	C	C	T	rs3814006	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	5	5	7	0	1	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
TRIML1	339976	hgsc.bcm.edu	37	4	189061106	189061106	+	Missense_Mutation	SNP	G	G	A	rs13131525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	308	308	254	0	1	0	G|0.670;A|0.330	0.330	strong	.	TRIML1	126	.	NM_178556	exon1	c.G394A	p.E132K	GAGGCTGAGGAGC	.	PASS	Atlas-SNP
CSN1S1	1446	hgsc.bcm.edu	37	4	70807771	70807771	+	Missense_Mutation	SNP	C	C	T	rs10030475	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	282	277	237	0	0.98227	0	C|0.659;T|0.341	0.341	strong	.	CSN1S1	20	.	NM_001890	exon13	c.C350T	p.A117V	AAGCTGCCCATGC	.	PASS	Atlas-SNP
PELI1	57162	hgsc.bcm.edu	37	2	64335394	64335394	+	Silent	SNP	A	A	G	rs17753351	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	62	118	0	0.516667	0	A|0.965;G|0.035	0.035	strong	.	PELI1	34	.	NM_020651	exon2	c.T51C	p.Y17Y	TTCACCATATTTT	.	PASS	Atlas-SNP
GIMAP6	474344	hgsc.bcm.edu	37	7	150325175	150325175	+	Missense_Mutation	SNP	C	C	T	rs13234724	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	36	67	0	0.545455	0	C|0.832;G|0.000;T|0.168	0.168	strong	GIMAP6,NS,carcinoma,+2,2	GIMAP6	60	2	NM_001244072	exon3	c.G721A	p.G241S	GGGAGCCGCCAGC	.	PASS	Atlas-SNP
SCO2	9997	hgsc.bcm.edu	37	22	50962259	50962259	+	Silent	SNP	G	G	A	rs131811	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	60	104	0	0.645161	0	G|0.958;A|0.042	0.042	strong	.	SCO2	38	.	NM_001169111	exon2	c.C582T	p.S194S	TTTGGTGGAGCCG	.	PASS	Atlas-SNP
CAPN7	23473	hgsc.bcm.edu	37	3	15259992	15259992	+	Missense_Mutation	SNP	G	G	A	rs35247476	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	29	42	0	0.460317	0	G|0.954;A|0.046	0.046	strong	.	CAPN7	63	.	NM_014296	exon4	c.G382A	p.A128T	GAAACTGCTGATA	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60921643	60921643	+	Missense_Mutation	SNP	T	T	C	rs4925229	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	253	320	1	1	0.003125	T|0.137;C|0.863	0.863	strong	.	LAMA5	268	.	NM_005560	exon9	c.A1201G	p.T401A	CGCCGGTGGTGTG	.	PASS	Atlas-SNP
SLC22A25	387601	hgsc.bcm.edu	37	11	62984868	62984868	+	Missense_Mutation	SNP	T	T	C	rs11231409	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	70	57	0	1	0	T|0.610;C|0.390	0.390	strong	.	SLC22A25	87	.	NM_199352	exon4	c.A748G	p.S250G	CCAGGCTTCCCAG	.	PASS	Atlas-SNP
PGM5	5239	hgsc.bcm.edu	37	9	70999315	70999315	+	Silent	SNP	T	T	C	rs17081271	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	297	125	262	1	0.420875	0.00381679	T|0.680;C|0.320	0.320	strong	.	PGM5	80	.	NM_021965	exon3	c.T426C	p.G142G	TTTAGGTCCTGCA	.	PASS	Atlas-SNP
CXorf40A	91966	hgsc.bcm.edu	37	X	148628490	148628490	+	Silent	SNP	A	A	T	rs56169705		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	174	687	1	0.988636	0.0014556	.	.	weak	.	CXorf40A	15	.	NM_178124	exon5	c.A459T	p.P153P	GATCCCATTGGGG	.	PASS	Atlas-SNP
OR10A2	341276	hgsc.bcm.edu	37	11	6891758	6891758	+	Missense_Mutation	SNP	A	A	C	rs7926083	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	79	166	0	0.519737	0	A|0.685;C|0.315	0.315	strong	.	OR10A2	55	.	NM_001004460	exon1	c.A773C	p.K258T	AGGGCAAGAAGCT	.	PASS	Atlas-SNP
CLU	1191	hgsc.bcm.edu	37	8	27462481	27462481	+	Silent	SNP	A	A	G	rs7982	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	67	138	0	0.5	0	G|0.610;C|0.000;A|0.390	0.610	strong	.	CLU	54	.	NM_001831	exon5	c.T789C	p.H263H	CGGGCTATGGAAG	.	PASS	Atlas-SNP
ADH7	131	hgsc.bcm.edu	37	4	100341861	100341861	+	Silent	SNP	C	C	T	rs971074	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	87	143	0	0.514793	0	C|0.862;T|0.138	0.138	strong	.	ADH7	76	.	NM_001166504	exon6	c.G714A	p.R238R	AATGATCCTAGAT	.	PASS	Atlas-SNP
CRB2	286204	hgsc.bcm.edu	37	9	126132919	126132919	+	Silent	SNP	G	G	A	rs33984675	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	28	57	0	0.595745	0	G|0.766;A|0.234	0.234	strong	.	CRB2	86	.	NM_173689	exon7	c.G1587A	p.A529A	TCTAGCGACCCTG	.	PASS	Atlas-SNP
ARHGAP42	143872	hgsc.bcm.edu	37	11	100814570	100814570	+	Silent	SNP	A	A	G	rs543146	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	31	71	0	0.476923	0	A|0.643;G|0.357	0.357	strong	.	ARHGAP42	32	.	NM_152432	exon10	c.A1014G	p.R338R	CAAACGATTCTGC	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147505116	147505116	+	Silent	SNP	G	G	A	rs3764930	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	264	277	0	1	0	G|0.545;A|0.455	0.455	strong	.	SPINK5	245	.	NM_001127698	exon29	c.G2769A	p.A923A	TGAAGCGGAGGAT	.	PASS	Atlas-SNP
RFPL1	5988	hgsc.bcm.edu	37	22	29837537	29837537	+	Missense_Mutation	SNP	T	T	C	rs3804076	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	323	129	296	0	0.399381	0	T|0.702;C|0.298	0.298	strong	RFPL1,colon,carcinoma,0,1	RFPL1	43	1	NM_021026	exon2	c.T380C	p.M127T	TGGATATGACCTT	.	PASS	Atlas-SNP
IQCE	23288	hgsc.bcm.edu	37	7	2649777	2649777	+	Missense_Mutation	SNP	C	C	T	rs1061566	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	151	185	0	1	0	C|0.919;T|0.081	0.081	strong	.	IQCE	66	.	NM_152558	exon22	c.C2069T	p.T690M	TGCCCACGAAGAA	.	PASS	Atlas-SNP
ZNF45	7596	hgsc.bcm.edu	37	19	44418544	44418544	+	Silent	SNP	A	A	G	rs425221	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	82	147	0	0.539474	0	A|0.488;G|0.512	0.512	strong	.	ZNF45	51	.	NM_003425	exon10	c.T1044C	p.N348N	ATGAATATTAAGG	.	PASS	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	37	9	100070351	100070351	+	Silent	SNP	G	G	C	rs12683119	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	50	137	0	0.413223	0	G|0.813;C|0.187	0.187	strong	.	.	.	.	NM_020893	exon2	c.G138C	p.S46S	GATGTCGTCAGTG	.	PASS	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	37	2	29297068	29297068	+	Silent	SNP	C	C	T	rs35929540	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	45	70	0	0.523256	0	C|0.822;T|0.178	0.178	strong	.	C2orf71	146	.	NM_001029883	exon1	c.G60A	p.Q20Q	CAAGAACTGAATG	.	PASS	Atlas-SNP
HTN3	3347	hgsc.bcm.edu	37	4	70898907	70898907	+	Silent	SNP	C	C	T	rs1849937	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	67	149	0	0.416149	0	C|0.911;T|0.089	0.089	strong	HTN3,NS,carcinoma,0,1	HTN3	16	1	NM_000200	exon5	c.C126T	p.G42G	TCGAGGCTATAGA	.	PASS	Atlas-SNP
FAF2	23197	hgsc.bcm.edu	37	5	175919324	175919324	+	Silent	SNP	G	G	A	rs78597771	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	27	80	0	0.355263	0	G|0.978;A|0.022	0.022	strong	.	FAF2	38	.	NM_014613	exon5	c.G474A	p.T158T	GGGAACGTACAGC	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28517492	28517492	+	Missense_Mutation	SNP	C	C	A	rs77399744	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	21	163	0	0.173554	0	C|0.500;A|0.500	0.500	weak	.	HERC2	501	.	NM_004667	exon9	c.G952T	p.D318Y	CGCTGTCCCACAG	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80899901	80899901	+	Missense_Mutation	SNP	C	C	A	rs11114486	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	152	199	1	0.980645	0.00502513	C|0.608;A|0.392	0.392	strong	PTPRQ,NS,carcinoma,0,1	PTPRQ	119	1	NM_001145026	exon12	c.C1855A	p.Q619K	ATCATACAAAAAT	.	PASS	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	37	1	208390469	208390469	+	Missense_Mutation	SNP	C	C	T	rs3748735	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	50	97	0	0.526316	0	C|0.850;T|0.150	0.150	strong	.	PLXNA2	178	.	NM_025179	exon2	c.G799A	p.A267T	TGATGGCCACACC	.	PASS	Atlas-SNP
NLRP13	126204	hgsc.bcm.edu	37	19	56423668	56423668	+	Silent	SNP	G	G	A	rs304001	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	71	113	0	0.577236	0	G|0.373;A|0.627	0.627	strong	.	NLRP13	220	.	NM_176810	exon5	c.C1515T	p.I505I	GCCCTCGATCTCA	.	PASS	Atlas-SNP
EXD1	161829	hgsc.bcm.edu	37	15	41488231	41488231	+	Missense_Mutation	SNP	G	G	C	rs139947718	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	32	52	0	0.457143	0	G|0.996;C|0.004	0.004	strong	.	EXD1	52	.	NM_152596	exon6	c.C365G	p.A122G	TTTGTGGCCACCT	.	PASS	Atlas-SNP
ZNF594	84622	hgsc.bcm.edu	37	17	5085893	5085893	+	Silent	SNP	C	C	T	rs4115657	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	141	146	0	1	0	C|0.545;T|0.455	0.455	strong	.	ZNF594	89	.	NM_032530	exon2	c.G1659A	p.E553E	AAGCTCCTCATCC	.	PASS	Atlas-SNP
MSGN1	343930	hgsc.bcm.edu	37	2	17998331	17998331	+	Silent	SNP	T	T	C	rs13001625	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	61	118	0	0.54955	0	T|0.585;C|0.415	0.415	strong	.	MSGN1	39	.	NM_001105569	exon1	c.T546C	p.L182L	CCTCCTTAACCGC	.	PASS	Atlas-SNP
NBPF14	25832	hgsc.bcm.edu	37	1	148009349	148009349	+	Missense_Mutation	SNP	A	A	G	rs141981140	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	232	14	70	0	0.0603448	0	A|0.941;G|0.059	0.059	strong	NBPF14,NS,carcinoma,0,1	NBPF14	107	1	NM_015383	exon16	c.T1958C	p.M653T	CCATCCATGTCAA	.	scavenged	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141337225	141337225	+	Silent	SNP	A	A	G	rs164077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	128	147	0	1	0	A|0.273;G|0.727	0.727	strong	.	PCDH12	133	.	NM_016580	exon1	c.T192C	p.A64A	GAAGGCAGCCCCA	.	PASS	Atlas-SNP
PARVB	29780	hgsc.bcm.edu	37	22	44489896	44489896	+	Silent	SNP	T	T	C	rs738479	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	24	66	0	0.585366	0	T|0.386;C|0.614	0.614	strong	.	PARVB	44	.	NM_001003828	exon3	c.T300C	p.L100L	CCAGCTTGGTACG	.	PASS	Atlas-SNP
OR8S1	341568	hgsc.bcm.edu	37	12	48920006	48920006	+	Missense_Mutation	SNP	G	G	A	rs12425518	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	427	196	428	0	0.459016	0	G|0.750;A|0.250	0.250	strong	.	OR8S1	47	.	NM_001005203	exon1	c.G592A	p.A198T	CTCATCGCCTTGC	.	PASS	Atlas-SNP
KRT75	9119	hgsc.bcm.edu	37	12	52824352	52824352	+	Silent	SNP	G	G	A	rs395623	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	94	145	0	0.487047	0	G|0.709;A|0.291	0.291	strong	.	KRT75	75	.	NM_004693	exon5	c.C1008T	p.A336A	AGCCTCGGCCCGG	.	PASS	Atlas-SNP
ABCA8	10351	hgsc.bcm.edu	37	17	66871837	66871837	+	Missense_Mutation	SNP	C	C	T	rs35403175	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	40	94	0	0.37037	0	C|0.961;T|0.039	0.039	strong	.	ABCA8	213	.	NM_007168	exon34	c.G4288A	p.G1430S	GGGCACCCCTTTC	.	PASS	Atlas-SNP
CCDC54	84692	hgsc.bcm.edu	37	3	107097346	107097346	+	Silent	SNP	C	C	A	rs3811061	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	297	164	289	1	0.552189	0.00346021	C|0.914;A|0.086	0.086	strong	.	CCDC54	56	.	NM_032600	exon1	c.C912A	p.T304T	CTTGACCACAATC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	29	54	0	0.460317	0	A|0.744;G|0.256	0.256	strong	.	LRRC61	17	.	NM_023942	exon2	c.A428G	p.N143S	GTGCCAACCCCTC	.	PASS	Atlas-SNP
TTC28	23331	hgsc.bcm.edu	37	22	28504258	28504258	+	Silent	SNP	A	A	G	rs9625409	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	55	90	0	0.56701	0	A|0.942;G|0.058	0.058	strong	.	TTC28	84	.	NM_001145418	exon7	c.T1575C	p.N525N	CAGGGCATTGTAG	.	PASS	Atlas-SNP
UBD	10537	hgsc.bcm.edu	37	6	29523957	29523957	+	Silent	SNP	A	A	G	rs404240	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	92	174	0	0.381743	0	A|0.947;G|0.053	0.053	strong	.	UBD	13	.	NM_006398	exon2	c.T198C	p.Y66Y	AATGCCATAAGAT	.	PASS	Atlas-SNP
ACTR8	93973	hgsc.bcm.edu	37	3	53905308	53905308	+	Silent	SNP	T	T	C	rs1046677	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	270	130	235	0	0.481481	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
ACPP	55	hgsc.bcm.edu	37	3	132068831	132068831	+	Silent	SNP	C	C	T	rs2228402	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	62	147	0	0.43662	0	C|0.529;T|0.471	0.471	strong	.	ACPP	118	.	NM_001099	exon8	c.C849T	p.L283L	AAAACTCATCATG	.	PASS	Atlas-SNP
TCP10	6953	hgsc.bcm.edu	37	6	167786686	167786686	+	Missense_Mutation	SNP	C	C	T	rs140649985	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	49	173	0	0.260638	0	C|0.994;T|0.006	0.006	strong	.	TCP10	35	.	NM_004610	exon8	c.G952A	p.A318T	AGGGAGCGGCGTG	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	37	12	32134943	32134943	+	Missense_Mutation	SNP	A	A	G	rs10771894	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	76	118	0	0.510067	0	A|0.620;G|0.380	0.380	strong	.	.	.	.	NM_018169	exon4	c.A1054G	p.S352G	TTTAACAGTCCCA	.	PASS	Atlas-SNP
OR10H5	284433	hgsc.bcm.edu	37	19	15905289	15905289	+	Missense_Mutation	SNP	G	G	T	rs61754873	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	104	270	1	0.470588	0.0037037	G|0.875;T|0.125	0.125	strong	.	OR10H5	49	.	NM_001004466	exon1	c.G431T	p.R144L	CCTGCCGGGTGGG	.	PASS	Atlas-SNP
REXO4	57109	hgsc.bcm.edu	37	9	136277482	136277482	+	Missense_Mutation	SNP	T	T	C	rs2285487	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	58	110	0	0.552381	0	T|0.944;C|0.056	0.056	strong	.	REXO4	27	.	NM_020385	exon4	c.A847G	p.T283A	GCTCAGTTGGTTT	.	PASS	Atlas-SNP
SLC23A3	151295	hgsc.bcm.edu	37	2	220034377	220034377	+	Silent	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	5	107	0	0.047619	0	.	.	none	.	SLC23A3	60	.	NM_001144890	exon2	c.G186T	p.L62L	ACAGAGCAGAGAA	.	PASS	Atlas-SNP
PCDHB15	56121	hgsc.bcm.edu	37	5	140626571	140626571	+	Silent	SNP	C	C	A	rs652104	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	118	153	0	0.690058	0	C|0.766;A|0.234	0.234	strong	PCDHB15,NS,carcinoma,0,1	PCDHB15	138	1	NM_018935	exon1	c.C1425A	p.A475A	CAGCGCCACAGAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195510827	195510827	+	Missense_Mutation	SNP	C	C	T	rs413807	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	723	351	465	0	0.485477	0	C|0.500;T|0.500	0.500	weak	.	MUC4	1505	.	NM_018406	exon2	c.G7624A	p.A2542T	AGGTGGCGTGACG	.	PASS	Atlas-SNP
HAGHL	84264	hgsc.bcm.edu	37	16	778820	778820	+	Silent	SNP	G	G	A	rs12448432	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	60	91	0	0.530973	0	G|0.733;A|0.267	0.267	strong	.	HAGHL	18	.	NM_032304	exon6	c.G525A	p.T175T	GCACACGCTTAGC	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151970797	151970797	+	Silent	SNP	A	A	T	rs141993954	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	745	87	751	0	0.116779	0	A|0.985;T|0.015	0.015	strong	MLL3_ENST00000355193,NS,adenoma,0,4	MLL3	1564	4	NM_170606	exon7	c.T1005A	p.P335P	TCTTTCAGGAGCT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195514948	195514948	+	Missense_Mutation	SNP	G	G	A	rs200751227	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	96	349	0	0.813559	0	G|0.819;A|0.181	0.181	strong	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.C3503T	p.P1168L	GGAAGAGGGGTGG	.	PASS	Atlas-SNP
HIF1AN	55662	hgsc.bcm.edu	37	10	102295836	102295836	+	Missense_Mutation	SNP	C	C	G	rs2295778	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	54	115	0	0.465517	0	C|0.806;G|0.194	0.194	strong	HIF1AN,NS,carcinoma,0,1	HIF1AN	41	1	NM_017902	exon1	c.C121G	p.P41A	ACTAGGCCCATTC	.	PASS	Atlas-SNP
UNC79	57578	hgsc.bcm.edu	37	14	94103602	94103602	+	Silent	SNP	G	G	A	rs4905082	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	48	120	0	0.461538	0	G|0.450;A|0.550	0.550	strong	UNC79,colon,carcinoma,+1,2	UNC79	366	2	NM_020818	exon33	c.G5343A	p.T1781T	GCCAACGTGCCTA	.	PASS	Atlas-SNP
ZNF625	90589	hgsc.bcm.edu	37	19	12256358	12256358	+	Silent	SNP	T	T	G	rs12972621	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	64	114	0	0.547009	0	G|0.365;N|0.000	0.365	strong	ZNF625,trunk,malignant_melanoma,-2,1	ZNF625	37	1	NM_145233	exon4	c.A873C	p.R291R	ATGATATCGAACG	.	PASS	Atlas-SNP
ZNF561	93134	hgsc.bcm.edu	37	19	9721401	9721401	+	Silent	SNP	A	A	T	rs28445940	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	80	180	0	0.47619	0	A|0.733;T|0.267	0.267	strong	.	ZNF561	64	.	NM_152289	exon6	c.T936A	p.T312T	ACAGTAAGTACAC	.	PASS	Atlas-SNP
ANKLE2	23141	hgsc.bcm.edu	37	12	133306710	133306710	+	Missense_Mutation	SNP	C	C	T	rs78905764	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	49	109	0	0.475728	0	C|0.934;T|0.066	0.066	strong	.	ANKLE2	76	.	NM_015114	exon11	c.G2038A	p.E680K	CCTGCTCCAAGGG	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	16949550	16949550	+	Silent	SNP	T	T	C	rs3740165	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	63	168	0	0.425676	0	T|0.911;C|0.089	0.089	strong	.	CUBN	515	.	NM_001081	exon49	c.A7662G	p.P2554P	GCCATATGGCCTG	.	PASS	Atlas-SNP
PAXIP1	22976	hgsc.bcm.edu	37	7	154760666	154760666	+	Silent	SNP	C	C	T	rs61752011	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	60	106	0	0.535714	0	C|0.784;T|0.216	0.216	strong	PAXIP1_ENST00000397192,NS,carcinoma,0,2	PAXIP1	150	2	NM_007349	exon7	c.G1245A	p.P415P	TAAAACCGGGTGC	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13780991	13780991	+	Silent	SNP	C	C	T	rs111995400	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	62	93	0	0.488189	0	C|0.979;T|0.021	0.021	strong	.	DNAH5	868	.	NM_001369	exon53	c.G8898A	p.T2966T	CAACCTCGTCAGG	.	PASS	Atlas-SNP
JAKMIP3	282973	hgsc.bcm.edu	37	10	133961494	133961494	+	Silent	SNP	C	C	T	rs2818384	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	48	117	0	0.466019	0	C|0.514;T|0.486	0.486	strong	.	JAKMIP3	69	.	NM_001105521	exon13	c.C1788T	p.H596H	CAGACACGAGGTG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134682855	134682855	+	Silent	SNP	C	C	T	rs7908950	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	20	48	0	0.487805	0	C|0.713;T|0.287	0.287	strong	.	TTC40	100	.	NM_001200049	exon33	c.G4533A	p.E1511E	CTTCAGCTCGGAG	.	PASS	Atlas-SNP
SMG6	23293	hgsc.bcm.edu	37	17	2203175	2203175	+	Missense_Mutation	SNP	C	C	G	rs1885986	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	83	139	0	0.491124	0	C|0.743;G|0.257	0.257	strong	.	SMG6	97	.	NM_017575	exon2	c.G872C	p.R291P	TTCAGTCGTGGCC	.	PASS	Atlas-SNP
IVL	3713	hgsc.bcm.edu	37	1	152882981	152882981	+	Silent	SNP	A	A	T	rs62637699	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	39	92	1	0.245283	0.0108696	A|0.696;T|0.304	0.304	strong	IVL,colon,carcinoma,+2,2	IVL	100	2	NM_005547	exon2	c.A708T	p.P236P	GCTCCCACAGCAG	.	scavenged	Atlas-SNP
SHROOM2	357	hgsc.bcm.edu	37	X	9863112	9863112	+	Silent	SNP	A	A	G	rs6530341	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	30	146	0	1	0	A|0.805;0|0.004	.	strong	.	SHROOM2	139	.	NM_001649	exon4	c.A1164G	p.P388P	CTGCCCACAGGAG	.	PASS	Atlas-SNP
GPR116	221395	hgsc.bcm.edu	37	6	46827073	46827073	+	Missense_Mutation	SNP	A	A	G	rs547499	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	288	114	201	0	0.395833	0	A|0.452;G|0.548	0.548	strong	GPR116,caecum,carcinoma,0,1	GPR116	133	1	NM_015234	exon17	c.T2567C	p.M856T	ATTACCATGCTGC	.	PASS	Atlas-SNP
LOXL4	84171	hgsc.bcm.edu	37	10	100013438	100013438	+	Silent	SNP	C	C	T	rs17524355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	47	118	0	0.546512	0	C|0.826;T|0.174	0.174	strong	LOXL4,caecum,carcinoma,-1,2	LOXL4	60	2	NM_032211	exon11	c.G1707A	p.A569A	GTGATCCGCAGAC	.	PASS	Atlas-SNP
NUAK2	81788	hgsc.bcm.edu	37	1	205273040	205273040	+	Silent	SNP	G	G	A	rs56069742	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	59	134	0	0.508621	0	G|0.992;A|0.008	0.008	strong	.	NUAK2	107	.	NM_030952	exon7	c.C1425T	p.G475G	CACGTCGCCTGCG	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11757556	11757556	+	Silent	SNP	C	C	G	rs12449553	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	164	111	0	0.993939	0	C|0.605;G|0.395	0.395	strong	DNAH9,NS,carcinoma,0,1	DNAH9	695	1	NM_001372	exon50	c.C9744G	p.P3248P	AGACCCCGAGTTC	.	PASS	Atlas-SNP
OR10A2	341276	hgsc.bcm.edu	37	11	6891605	6891605	+	Missense_Mutation	SNP	A	A	G	rs10839631	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	304	164	335	0	0.539474	0	A|0.689;G|0.311	0.311	strong	.	OR10A2	55	.	NM_001004460	exon1	c.A620G	p.H207R	ATACTCACATTGC	.	PASS	Atlas-SNP
FDFT1	2222	hgsc.bcm.edu	37	8	11689119	11689119	+	Silent	SNP	G	G	C	rs9205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	40	150	0	0.392157	0	G|0.773;C|0.227	0.227	strong	.	FDFT1	25	.	NM_004462	exon7	c.G972C	p.L324L	GACCCTGATGATG	.	PASS	Atlas-SNP
SMIM3	85027	hgsc.bcm.edu	37	5	150175109	150175109	+	Missense_Mutation	SNP	C	C	T	rs61736140	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	40	59	0	0.689655	0	C|0.996;T|0.004	0.004	strong	.	.	.	.	NM_032947	exon2	c.C107T	p.S36L	TGACCTCGTTGTT	.	PASS	Atlas-SNP
DMD	1756	hgsc.bcm.edu	37	X	31697636	31697636	+	Silent	SNP	A	A	G	rs1801188	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	56	136	0	1	0	0|0.002;G|0.185	0.185	strong	.	DMD	2127	.	NM_004006	exon53	c.T7728C	p.N2576N	CATTTCATTCAAC	.	PASS	Atlas-SNP
CACNA1A	773	hgsc.bcm.edu	37	19	13397324	13397324	+	Silent	SNP	G	G	A	rs16029	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	63	159	0	0.366279	0	G|0.987;A|0.013	0.013	strong	.	CACNA1A	715	.	NM_001127221	exon20	c.C3549T	p.V1183V	TTGTACGACGGTG	.	PASS	Atlas-SNP
TUBA3C	7278	hgsc.bcm.edu	37	13	19751544	19751544	+	Silent	SNP	C	C	T	rs61735701	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	522	287	529	1	0.549808	0.00189036	C|0.737;T|0.263	0.263	strong	.	TUBA3C	166	.	NM_006001	exon4	c.G579A	p.T193T	CAGGGTCGTGTGG	.	PASS	Atlas-SNP
MPP2	4355	hgsc.bcm.edu	37	17	41960343	41960343	+	Silent	SNP	T	T	C	rs124719	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	124	118	0	0.984127	0	T|0.208;C|0.792	0.792	strong	.	MPP2	67	.	NM_005374	exon5	c.A381G	p.T127T	GCTGAATGTAGGG	.	PASS	Atlas-SNP
HIVEP1	3096	hgsc.bcm.edu	37	6	12124855	12124855	+	Missense_Mutation	SNP	G	G	A	rs2228213	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	192	118	0	0.989691	0	G|0.757;A|0.241	0.241	strong	HIVEP1,NS,carcinoma,0,1	HIVEP1	242	1	NM_002114	exon4	c.G4827A	p.M1609I	CAGCATGTCTAAT	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147480027	147480027	+	Missense_Mutation	SNP	G	G	A	rs2303063	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	100	0	1	0	G|0.573;A|0.427	0.427	strong	.	SPINK5	245	.	NM_001127699	exon13	c.G1103A	p.S368N	TTTGCAGTGAATA	.	PASS	Atlas-SNP
PKN2	5586	hgsc.bcm.edu	37	1	89271574	89271574	+	Silent	SNP	T	T	C	rs786906	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	167	220	1	0.982353	0.00454545	T|0.475;G|0.005	.	strong	.	PKN2	109	.	NM_006256	exon12	c.T1677C	p.S559S	TATAAGTGATTCT	.	PASS	Atlas-SNP
FAM175B	23172	hgsc.bcm.edu	37	10	126517989	126517989	+	Silent	SNP	G	G	A	rs2303611	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	202	188	0	1	0	G|0.534;A|0.466	0.466	strong	.	FAM175B	39	.	NM_032182	exon7	c.G606A	p.V202V	TGGAGTGATGAAA	.	PASS	Atlas-SNP
ELN	2006	hgsc.bcm.edu	37	7	73470714	73470714	+	Missense_Mutation	SNP	G	G	A	rs2071307	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306	147	258	0	0.480392	0	G|0.704;A|0.296	0.296	strong	ELN,NS,carcinoma,0,1	ELN	81	1	NM_001081753	exon20	c.G1279A	p.G427S	GTCCCTGGTGTCG	.	PASS	Atlas-SNP
C5orf64	285668	hgsc.bcm.edu	37	5	60982841	60982841	+	Missense_Mutation	SNP	G	G	A	rs16893687	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	106	274	0	0.422311	0	G|0.539;A|0.461	0.461	strong	.	C5orf64	9	.	NM_173667	exon3	c.G169A	p.A57T	CTGACCGCTGAAG	.	PASS	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	37	4	123664256	123664256	+	Silent	SNP	G	G	A	rs17006092	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	58	143	0	0.386667	0	G|0.961;A|0.039	0.039	strong	.	BBS12	63	.	NM_001178007	exon3	c.G1209A	p.V403V	ACAGGTGTTAATC	.	PASS	Atlas-SNP
PANX3	116337	hgsc.bcm.edu	37	11	124481558	124481558	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	3	189	0	0.0136986	0	.	.	none	PANX3,NS,carcinoma,-1,1	PANX3	52	1	NM_052959	exon1	c.C106T	p.R36W	CTGGACCGGATAG	.	scavenged	Atlas-SNP
AP4B1	10717	hgsc.bcm.edu	37	1	114444444	114444444	+	Silent	SNP	T	T	G	rs34751342	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	54	165	0	0.3375	0	T|0.971;G|0.029	0.029	strong	.	AP4B1	72	.	NM_006594	exon4	c.A402C	p.S134S	GACATATGAAGCC	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60920887	60920887	+	Silent	SNP	G	G	A	rs11204472	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	74	88	0	1	0	G|0.487;A|0.513	0.513	strong	.	LAMA5	268	.	NM_005560	exon11	c.C1464T	p.A488A	CTGGCCGGCTGGC	.	PASS	Atlas-SNP
UTS2	10911	hgsc.bcm.edu	37	1	7913445	7913445	+	Missense_Mutation	SNP	C	C	T	rs13306061	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	98	171	0	0.6125	0	C|0.870;T|0.130	0.130	strong	.	UTS2	18	.	NM_021995	exon1	c.G47A	p.R16Q	TGAGTCCGAGCAG	.	PASS	Atlas-SNP
FAM24B	196792	hgsc.bcm.edu	37	10	124610027	124610027	+	Missense_Mutation	SNP	G	G	A	rs1891110	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	96	164	0	0.545455	0	G|0.475;A|0.525	0.525	strong	.	FAM24B	9	.	NM_001204364	exon3	c.C5T	p.P2L	ATGACAGGCATAA	.	PASS	Atlas-SNP
NIPSNAP3B	55335	hgsc.bcm.edu	37	9	107531152	107531152	+	Missense_Mutation	SNP	G	G	C	rs10761084	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	78	140	0	0.530612	0	G|0.846;C|0.154	0.154	strong	NIPSNAP3B,NS,carcinoma,0,1	NIPSNAP3B	22	1	NM_018376	exon3	c.G280C	p.A94P	AATTTTGCTCATC	.	PASS	Atlas-SNP
REP15	387849	hgsc.bcm.edu	37	12	27849795	27849795	+	Silent	SNP	C	C	T	rs929948	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	53	58	0	1	0	C|0.408;T|0.592	0.592	strong	.	REP15	13	.	NM_001029874	exon1	c.C300T	p.S100S	GGGATCCAACAAG	.	PASS	Atlas-SNP
CCDC146	57639	hgsc.bcm.edu	37	7	76891535	76891535	+	Nonsense_Mutation	SNP	C	C	T	rs371350411		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	13	74	0	0.127451	0	.	.	weak	CCDC146,NS,carcinoma,0,2	CCDC146	87	2	NM_020879	exon9	c.C1084T	p.R362X	GATTTTCGAAATT	.	PASS	Atlas-SNP
PPYR1	5540	hgsc.bcm.edu	37	10	47087609	47087609	+	Missense_Mutation	SNP	G	G	A	rs79871698	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	25	91	0	0.18797	0	G|0.938;A|0.062	0.062	strong	.	PPYR1	54	.	NM_005972	exon3	c.G826A	p.V276M	TTTGCTGTGCTCT	.	PASS	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	37	4	123664457	123664457	+	Silent	SNP	C	C	T	rs13135445	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	91	203	1	0.514124	0.00492611	C|0.818;T|0.182	0.182	strong	.	BBS12	63	.	NM_001178007	exon3	c.C1410T	p.C470C	GGTCTGCGTGACC	.	PASS	Atlas-SNP
NLRP5	126206	hgsc.bcm.edu	37	19	56538723	56538723	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	11	57	0	0.229167	0	.	.	none	.	NLRP5	217	.	NM_153447	exon7	c.C1124T	p.T375I	ATGACACAAAGCT	.	PASS	Atlas-SNP
UFSP1	402682	hgsc.bcm.edu	37	7	100486754	100486754	+	Missense_Mutation	SNP	G	G	C	rs12666989	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	74	70	0	1	0	G|0.879;C|0.121	0.121	strong	.	UFSP1	8	.	NM_001015072	exon1	c.C139G	p.L47V	TCTCCAGCTCCCC	.	PASS	Atlas-SNP
PRUNE2	158471	hgsc.bcm.edu	37	9	79322068	79322068	+	Missense_Mutation	SNP	G	G	T	rs683866	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	93	171	0	0.537572	0	G|0.498;T|0.502	0.502	strong	.	PRUNE2	331	.	NM_015225	exon8	c.C5122A	p.H1708N	CAACGTGGCAGTT	.	PASS	Atlas-SNP
OTOGL	283310	hgsc.bcm.edu	37	12	80735771	80735771	+	Silent	SNP	T	T	C	rs10778727	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	69	122	0	0.492857	0	T|0.487;C|0.513	0.513	strong	OTOGL_ENST00000458043,NS,carcinoma,+1,3	OTOGL	235	3	NM_173591	exon43	c.T5067C	p.N1689N	GCAAAATGGCACA	.	PASS	Atlas-SNP
ANKMY1	51281	hgsc.bcm.edu	37	2	241463595	241463595	+	Missense_Mutation	SNP	T	T	C	rs35996697	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	41	77	0	0.525641	0	T|0.828;C|0.172	0.172	strong	ANKMY1_ENST00000361678,colon,carcinoma,0,2	ANKMY1	112	2	NM_016552	exon7	c.A1272G	p.I424M	GTGGTCTATGGAC	.	PASS	Atlas-SNP
PRRT4	401399	hgsc.bcm.edu	37	7	127991133	127991133	+	Missense_Mutation	SNP	G	G	A	rs891215	bycluster;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	60	96	0	0.983607	0	G|0.505;A|0.495	0.495	strong	.	PRRT4	31	.	NM_001174164	exon6	c.C2477T	p.P826L	CAGCGCGGGGGCC	.	PASS	Atlas-SNP
LCE3D	84648	hgsc.bcm.edu	37	1	152552285	152552285	+	Missense_Mutation	SNP	C	C	A	rs61745411		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	314	304	260	1	0.968153	0.00384615	C|0.986;A|0.014	0.014	weak	LCE3D,NS,carcinoma,0,1	LCE3D	28	1	NM_032563	exon2	c.G128T	p.G43V	CCACAGCCCCCAG	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100696348	100696348	+	Silent	SNP	G	G	T	rs200413820	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	43	97	0	0.383929	0	G|1.000;T|0.000	0.000	strong	MUC17,right_lower_lobe,carcinoma,0,1	MUC17	804	1	NM_001040105	exon10	c.G13185T	p.V4395V	CCTCGTGGGGGCA	.	PASS	Atlas-SNP
COG5	10466	hgsc.bcm.edu	37	7	106897237	106897237	+	Silent	SNP	A	A	C	rs17349904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	43	70	0	0.488636	0	A|0.851;C|0.149	0.149	strong	.	COG5	78	.	NM_006348	exon16	c.T1782G	p.V594V	GGAAACAACCTAG	.	PASS	Atlas-SNP
TRPC1	7220	hgsc.bcm.edu	37	3	142523349	142523349	+	Silent	SNP	G	G	A	rs3821647	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	234	120	212	0	0.512821	0	G|0.806;A|0.194	0.194	strong	TRPC1,NS,carcinoma,0,1	TRPC1	82	1	NM_001251845	exon12	c.G2031A	p.T677T	ATGTACGTTACCT	.	PASS	Atlas-SNP
ART4	420	hgsc.bcm.edu	37	12	14993608	14993608	+	Silent	SNP	G	G	A	rs3088189	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	70	182	0	0.496454	0	G|0.677;A|0.323	0.323	strong	ART4,NS,adenoma,0,2	ART4	27	2	NM_021071	exon2	c.C624T	p.L208L	TGTGGAGAGGAAT	.	PASS	Atlas-SNP
ASPM	259266	hgsc.bcm.edu	37	1	197070815	197070815	+	Silent	SNP	T	T	C	rs1412640	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	83	118	0	0.553333	0	T|0.189;C|0.811	0.811	strong	.	ASPM	444	.	NM_018136	exon18	c.A7566G	p.L2522L	TCTTTGTAATTTT	.	PASS	Atlas-SNP
GALNTL5	168391	hgsc.bcm.edu	37	7	151684256	151684256	+	Missense_Mutation	SNP	A	A	G	rs61729490	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	33	61	0	0.515625	0	A|0.814;G|0.186	0.186	strong	.	GALNTL5	87	.	NM_145292	exon5	c.A548G	p.E183G	TGAAAGAAAAACT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	32	86	0	0.477612	0	G|0.640;T|0.360	0.360	strong	.	TTC40	100	.	NM_001200049	exon12	c.C1417A	p.R473S	ACAGACGCAGCCG	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50754563	50754563	+	Missense_Mutation	SNP	T	T	G	rs12303082	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	55	89	0	0.514019	0	T|0.371;G|0.629	0.629	strong	.	FAM186A	181	.	NM_001145475	exon3	c.A559C	p.K187Q	TCTTCTTTTCGTC	.	PASS	Atlas-SNP
TSHZ2	128553	hgsc.bcm.edu	37	20	51870336	51870336	+	Missense_Mutation	SNP	G	G	C	rs739869	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	45	86	0	0.48913	0	G|0.921;C|0.079	0.079	strong	.	TSHZ2	209	.	NM_173485	exon2	c.G339C	p.R113S	CGTCAGGCTTCCA	.	PASS	Atlas-SNP
ADCK1	57143	hgsc.bcm.edu	37	14	78390880	78390880	+	Silent	SNP	T	T	C	rs2302944	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	17	64	0	0.447368	0	T|0.791;C|0.209	0.209	strong	.	ADCK1	81	.	NM_020421	exon8	c.T939C	p.N313N	CGGCAATGTACTG	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104170350	104170350	+	Silent	SNP	A	A	G	rs1047968	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	76	163	0	0.436782	0	A|0.931;G|0.069	0.069	strong	.	ZNF189	79	.	NM_003452	exon3	c.A300G	p.T100T	AGAAACATTTGAA	.	PASS	Atlas-SNP
FBXO32	114907	hgsc.bcm.edu	37	8	124525483	124525483	+	Silent	SNP	C	C	T	rs3739287	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	82	157	0	0.5125	0	C|0.843;T|0.157	0.157	strong	.	FBXO32	39	.	NM_058229	exon6	c.G606A	p.T202T	GAGAATCGTCTCC	.	PASS	Atlas-SNP
OR8A1	390275	hgsc.bcm.edu	37	11	124440362	124440362	+	Missense_Mutation	SNP	C	C	G	rs55861866	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	176	165	0	0.988764	0	C|0.718;G|0.282	0.282	strong	OR8A1,colon,carcinoma,+1,1	OR8A1	61	1	NM_001005194	exon1	c.C398G	p.T133R	TGCTGACAGTGAT	.	PASS	Atlas-SNP
USP40	55230	hgsc.bcm.edu	37	2	234432017	234432017	+	Missense_Mutation	SNP	A	A	G	rs838543	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	93	179	0	0.522472	0	T|0.001;G|0.188	0.188	strong	.	USP40	174	.	NM_018218	exon15	c.T2033C	p.V678A	GGAAAGACATGTG	.	PASS	Atlas-SNP
RPS6KA2	6196	hgsc.bcm.edu	37	6	166826255	166826255	+	Silent	SNP	G	G	A	rs909631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	19	39	0	0.703704	0	G|0.419;A|0.581	0.581	strong	.	RPS6KA2	212	.	NM_001006932	exon22	c.C2221T	p.L741L	GCTACAGCCGCGT	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	37	1	248737348	248737348	+	Silent	SNP	G	G	A	rs61833442	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	434	50	338	0	0.115207	0	G|0.787;A|0.213	0.213	strong	OR2T34,NS,carcinoma,-2,1	OR2T34	72	1	NM_001001821	exon1	c.C711T	p.A237A	GCGGCCGGCGGCA	.	PASS	Atlas-SNP
SYTL5	94122	hgsc.bcm.edu	37	X	37932886	37932886	+	Silent	SNP	A	A	G	rs4827330	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	208	361	1	0.981132	0.00277008	A|0.684;0|0.003	.	strong	.	SYTL5	72	.	NM_001163334	exon4	c.A489G	p.A163A	GGATGCAGAAAAG	.	PASS	Atlas-SNP
TNR	7143	hgsc.bcm.edu	37	1	175324651	175324651	+	Silent	SNP	A	A	G	rs2228359	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	56	102	0	0.46281	0	A|0.349;G|0.651	0.651	strong	TNR,colon,carcinoma,-2,1	TNR	399	1	NM_003285	exon17	c.T3237C	p.D1079D	GCTTCCATCGGTG	.	PASS	Atlas-SNP
GNA14	9630	hgsc.bcm.edu	37	9	80040566	80040566	+	Silent	SNP	C	C	T	rs1801259	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	65	132	0	0.464286	0	C|0.894;T|0.106	0.106	strong	.	GNA14	50	.	NM_004297	exon6	c.G789A	p.S263S	CACAGACGAATTC	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75969335	75969335	+	Missense_Mutation	SNP	C	C	T	rs77237106	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	45	60	0	0.652174	0	C|0.919;T|0.081	0.081	strong	.	CSPG4	175	.	NM_001897	exon10	c.G5525A	p.R1842Q	GTGAGCCGGAGTG	.	PASS	Atlas-SNP
MAP4K5	11183	hgsc.bcm.edu	37	14	50901768	50901768	+	Missense_Mutation	SNP	G	G	A	rs17780143	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	19	28	0	0.575758	0	G|0.951;A|0.049	0.049	strong	MAP4K5,lymph_node,lymphoid_neoplasm,0,1	MAP4K5	48	1	NM_006575	exon26	c.C1898T	p.T633M	TGTCCCGTGTAAG	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1536535	1536535	+	Missense_Mutation	SNP	C	C	T	rs2745098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	70	152	0	0.5	0	C|0.507;T|0.493	0.493	strong	.	PTX4	46	.	NM_001013658	exon3	c.G827A	p.R276K	ACGTTCCTGGTGG	.	PASS	Atlas-SNP
CTC1	80169	hgsc.bcm.edu	37	17	8138569	8138569	+	Missense_Mutation	SNP	C	C	G	rs62624978	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	11	36	0	0.282051	0	C|0.987;G|0.013	0.013	strong	.	CTC1	75	.	NM_025099	exon8	c.G1241C	p.G414A	GTCCCCCCTCCCA	.	PASS	Atlas-SNP
SULT6B1	391365	hgsc.bcm.edu	37	2	37406680	37406680	+	Missense_Mutation	SNP	C	C	G	rs10205833	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	36	70	0	0.45	0	C|0.686;G|0.314	0.314	strong	.	SULT6B1	46	.	NM_001032377	exon4	c.G336C	p.L112F	GAAATGCAAAAAA	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149489491	149489491	+	Missense_Mutation	SNP	C	C	T	rs1076277	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	12	50	0	0.6	0	C|0.942;T|0.058	0.058	strong	.	.	.	.	NM_198455	exon37	c.C5644T	p.R1882C	GGGCAACGCATCA	.	PASS	Atlas-SNP
TMEM260	0	hgsc.bcm.edu	37	14	57052511	57052511	+	Silent	SNP	G	G	T	rs3737171	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	109	241	0	0.457983	0	G|0.674;T|0.326	0.326	strong	.	.	.	.	NM_017799	exon3	c.G225T	p.T75T	GTTCACGCTGGTG	.	PASS	Atlas-SNP
ZNF439	90594	hgsc.bcm.edu	37	19	11979164	11979164	+	Missense_Mutation	SNP	T	T	C	rs10500209	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	36	85	0	0.455696	0	T|0.842;C|0.158	0.158	strong	.	ZNF439	67	.	NM_152262	exon3	c.T1280C	p.L427S	TTCAATTGCATGG	.	PASS	Atlas-SNP
ACACB	32	hgsc.bcm.edu	37	12	109577735	109577735	+	Silent	SNP	C	C	T	rs2878960	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	91	95	0	0.98913	0	C|0.511;T|0.489	0.489	strong	.	ACACB	330	.	NM_001093	exon1	c.C525T	p.S175S	CTCCTCCGACGAG	.	PASS	Atlas-SNP
GPR78	27201	hgsc.bcm.edu	37	4	8582742	8582742	+	Silent	SNP	C	C	T	rs17844776	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	25	95	0	0.454545	0	C|0.811;T|0.189	0.189	strong	.	GPR78	58	.	NM_080819	exon1	c.C33T	p.L11L	GGGTCTCCTGGTG	.	PASS	Atlas-SNP
VWA2	340706	hgsc.bcm.edu	37	10	116020974	116020974	+	Silent	SNP	C	C	G	rs71484937	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	75	164	0	0.407609	0	C|0.943;G|0.057	0.057	strong	.	VWA2	64	.	NM_001272046	exon5	c.C291G	p.S97S	CAGTTCCACTCCT	.	PASS	Atlas-SNP
TSSK2	23617	hgsc.bcm.edu	37	22	19119545	19119545	+	Silent	SNP	C	C	T	rs45604134	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	51	87	0	0.435897	0	C|0.846;T|0.154	0.154	strong	.	TSSK2	29	.	NM_053006	exon1	c.C633T	p.C211C	GGTCTGCGGCTCC	.	PASS	Atlas-SNP
PSMD5	5711	hgsc.bcm.edu	37	9	123583192	123583192	+	Silent	SNP	A	A	G	rs1060817	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	25	62	0	0.367647	0	A|0.532;G|0.468	0.468	strong	.	PSMD5	34	.	NM_005047	exon9	c.T1182C	p.D394D	CAGTGGATCCCGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	45	104	0	0.45	0	A|0.771;G|0.229	0.229	strong	.	MUC16	4315	.	NM_024690	exon3	c.T15133C	p.S5045P	GTGAGGACAGAAA	.	PASS	Atlas-SNP
ETV1	2115	hgsc.bcm.edu	37	7	13978809	13978809	+	Missense_Mutation	SNP	T	T	C	rs9639168	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	45	90	0	0.409091	0	C|0.302;N|0.000	0.302	strong	ETV1_ENST00000403527,NS,meningioma,0,2	ETV1	138	2	NM_004956	exon7	c.A298G	p.S100G	CAGAGCTGATTTC	.	PASS	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	37	3	38151731	38151731	+	Silent	SNP	T	T	C	rs12630114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	18	65	0	0.321429	0	C|0.467;N|0.000	0.467	strong	.	DLEC1	278	.	NM_007337	exon23	c.T3402C	p.Y1134Y	TGAGTATTTCGGG	.	PASS	Atlas-SNP
PLCB3	5331	hgsc.bcm.edu	37	11	64034866	64034866	+	Silent	SNP	G	G	A	rs7938380	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	21	49	0	0.5	0	G|0.888;A|0.112	0.112	strong	.	PLCB3	103	.	NM_000932	exon31	c.G3543A	p.A1181A	GCGGGCGAGGCTC	.	PASS	Atlas-SNP
OR4C11	219429	hgsc.bcm.edu	37	11	55371381	55371381	+	Nonsense_Mutation	SNP	G	G	A	rs75423534	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	104	69	0	0.634146	0	G|0.926;A|0.074	0.074	strong	OR4C11,rectum,carcinoma,0,1	OR4C11	73	1	NM_001004700	exon1	c.C469T	p.Q157X	TAATCTGAGCTGT	.	PASS	Atlas-SNP
N4BP2	55728	hgsc.bcm.edu	37	4	40103767	40103767	+	Missense_Mutation	SNP	G	G	T	rs17511668	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	54	83	0	0.545455	0	G|0.859;T|0.141	0.141	strong	.	N4BP2	166	.	NM_018177	exon4	c.G302T	p.S101I	CACAAAGTTTCGT	.	PASS	Atlas-SNP
WWTR1	25937	hgsc.bcm.edu	37	3	149290781	149290781	+	Silent	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	15	92	0	0.157895	0	.	.	none	.	WWTR1	42	.	NM_001168278	exon4	c.A438C	p.I146I	TTTTTCTATGTGA	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114261053	114261053	+	Silent	SNP	G	G	A	rs11066773	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	22	39	0	0.458333	0	G|0.894;A|0.106	0.106	strong	.	RBM19	117	.	NM_001146699	exon24	c.C2859T	p.S953S	CTCCTCGCTGTCG	.	PASS	Atlas-SNP
ONECUT1	3175	hgsc.bcm.edu	37	15	53081859	53081859	+	Missense_Mutation	SNP	G	G	C	rs74805019	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	23	80	0	0.338235	0	G|0.981;C|0.019	0.019	strong	.	ONECUT1	48	.	NM_004498	exon1	c.C223G	p.P75A	GCTCAGGGGCCCG	.	PASS	Atlas-SNP
KRTAP3-3	85293	hgsc.bcm.edu	37	17	39150167	39150167	+	Silent	SNP	G	G	A	rs12452295	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	372	370	494	0	0.994624	0	G|0.777;A|0.223	0.223	strong	KRTAP3-3,NS,carcinoma,0,1	KRTAP3-3	11	1	NM_033185	exon1	c.C183T	p.C61C	GGGCACGCAGGGC	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75981976	75981976	+	Missense_Mutation	SNP	C	C	T	rs200493777		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	11	181	0	0.0594595	0	C|0.999;T|0.001	0.001	weak	CSPG4,NS,carcinoma,0,2	CSPG4	175	2	NM_001897	exon3	c.G1430A	p.R477H	CCATGGCGTGCCC	.	scavenged	Atlas-SNP
HS3ST1	9957	hgsc.bcm.edu	37	4	11401087	11401087	+	Silent	SNP	A	A	G	rs1047389	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	69	150	0	0.50365	0	G|0.241;N|0.000	0.241	strong	.	HS3ST1	41	.	NM_005114	exon2	c.T543C	p.D181D	CCTGCCATCGCGC	.	PASS	Atlas-SNP
TATDN1	83940	hgsc.bcm.edu	37	8	125528135	125528135	+	Silent	SNP	G	G	A	rs11542673	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	128	256	0	0.496124	0	G|0.918;A|0.082	0.082	strong	.	TATDN1	29	.	NM_032026	exon5	c.C339T	p.C113C	AAGTCCGCATTCT	.	PASS	Atlas-SNP
FAM160A2	84067	hgsc.bcm.edu	37	11	6239139	6239139	+	Silent	SNP	A	A	G	rs11040809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	16	37	0	0.347826	0	A|0.841;G|0.159;N|0.000;T|0.000	0.159	strong	.	FAM160A2	100	.	NM_032127	exon9	c.T1719C	p.R573R	ACCACGACGTGCC	.	PASS	Atlas-SNP
EGFL8	80864	hgsc.bcm.edu	37	6	32134510	32134510	+	Missense_Mutation	SNP	G	G	A	rs3096697	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	48	111	0	0.4	0	G|0.830;A|0.170	0.170	strong	.	EGFL8	15	.	NM_030652	exon4	c.G257A	p.R86K	AGGTGAGGCGGGA	.	PASS	Atlas-SNP
FNDC1	84624	hgsc.bcm.edu	37	6	159672455	159672455	+	Silent	SNP	C	C	T	rs294899	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	74	146	0	0.486842	0	C|0.523;T|0.477	0.477	strong	.	FNDC1	250	.	NM_032532	exon17	c.C4956T	p.D1652D	GAGTGACCTGCCT	.	PASS	Atlas-SNP
JMJD1C	221037	hgsc.bcm.edu	37	10	64927837	64927837	+	Missense_Mutation	SNP	C	C	T	rs71508957	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	45	102	0	0.401786	0	C|0.998;T|0.002	0.002	strong	.	JMJD1C	347	.	NM_032776	exon26	c.G7591A	p.E2531K	CATCCTCGTGTAT	.	PASS	Atlas-SNP
C12orf71	728858	hgsc.bcm.edu	37	12	27235279	27235279	+	Silent	SNP	G	G	A	rs12228215	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	305	303	264	0	0.993443	0	G|0.955;A|0.045	0.045	strong	.	C12orf71	20	.	NM_001080406	exon1	c.C138T	p.S46S	ACCCTTGGAAGGT	.	PASS	Atlas-SNP
HTR4	3360	hgsc.bcm.edu	37	5	147929740	147929740	+	Silent	SNP	G	G	A	rs17706743	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	28	51	0	0.528302	0	G|0.970;A|0.030	0.030	strong	.	HTR4	161	.	NM_001040169	exon2	c.C112T	p.L38L	CCAGCAGGTTCCC	.	PASS	Atlas-SNP
ABCA8	10351	hgsc.bcm.edu	37	17	66873743	66873743	+	Silent	SNP	G	G	A	rs8068987	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	91	187	0	0.466667	0	G|0.860;A|0.140	0.140	strong	.	ABCA8	213	.	NM_007168	exon31	c.C3996T	p.P1332P	CAGGTTGGGCCAC	.	PASS	Atlas-SNP
CCDC102B	79839	hgsc.bcm.edu	37	18	66504351	66504351	+	Silent	SNP	G	G	A	rs637051	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	88	114	0	1	0	G|0.744;A|0.256	0.256	strong	CCDC102B,NS,carcinoma,+1,1	CCDC102B	92	1	NM_001093729	exon4	c.G351A	p.R117R	TGCCAGGGAGGAA	.	PASS	Atlas-SNP
DMPK	1760	hgsc.bcm.edu	37	19	46275976	46275976	+	Missense_Mutation	SNP	G	G	C	rs527221	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	23	67	0	0.469388	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
OR2AG2	338755	hgsc.bcm.edu	37	11	6790106	6790106	+	Missense_Mutation	SNP	T	T	C	rs7102536	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	167	114	0	0.994048	0	T|0.137;C|0.863	0.863	strong	.	OR2AG2	55	.	NM_001004490	exon1	c.A83G	p.Y28C	GTAGCATAGAGCA	.	PASS	Atlas-SNP
DNAJC6	9829	hgsc.bcm.edu	37	1	65855119	65855119	+	Silent	SNP	G	G	A	rs148673423		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	2	134	0	0.0155039	0	G|1.000;A|0.000	0.000	weak	DNAJC6,NS,carcinoma,+1,2	DNAJC6	104	2	NM_001256864	exon10	c.G1374A	p.T458T	AGATACGCTGGCC	.	scavenged	Atlas-SNP
CEP250	11190	hgsc.bcm.edu	37	20	34092076	34092076	+	Missense_Mutation	SNP	G	G	A	rs56259282	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	21	48	0	0.388889	0	G|0.993;A|0.007	0.007	strong	.	CEP250	141	.	NM_007186	exon30	c.G5879A	p.R1960Q	CTGCCCGGGCCCG	.	PASS	Atlas-SNP
CYP2A13	1553	hgsc.bcm.edu	37	19	41600311	41600311	+	Missense_Mutation	SNP	A	A	C	rs115698903	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	108	229	0	0.507042	0	A|0.995;C|0.005	0.005	strong	CYP2A13,NS,carcinoma,-1,1	CYP2A13	90	1	NM_000766	exon7	c.A1135C	p.K379Q	GACACCAAGTTTC	.	PASS	Atlas-SNP
PAN2	9924	hgsc.bcm.edu	37	12	56716948	56716948	+	Missense_Mutation	SNP	A	A	C	rs34404784	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	66	118	0	0.545455	0	A|0.994;C|0.006	0.006	strong	.	PAN2	107	.	NM_001127460	exon17	c.T2403G	p.I801M	CTCCTCAATGGAG	.	PASS	Atlas-SNP
PRDM9	56979	hgsc.bcm.edu	37	5	23527385	23527385	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	255	4	221	7	0.0156863	0.0316742	.	.	none	PRDM9,rectum,carcinoma,-2,1	PRDM9	344	1	NM_020227	exon11	c.A2188C	p.S730R	GGCTTTAGCAATA	.	scavenged	Atlas-SNP
OR2D2	120776	hgsc.bcm.edu	37	11	6913290	6913290	+	Missense_Mutation	SNP	A	A	G	rs1965209	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	81	194	0	0.490909	0	A|0.840;G|0.160	0.160	strong	.	OR2D2	52	.	NM_003700	exon1	c.T442C	p.S148P	TCCATGATCCTGT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508526	195508526	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	31	100	0	0.279279	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C9925G	p.H3309D	TGGCGTGACCTGT	.	scavenged	Atlas-SNP
TPST2	8459	hgsc.bcm.edu	37	22	26937198	26937198	+	Silent	SNP	C	C	G	rs140525210	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	23	38	0	0.469388	0	C|0.985;G|0.015	0.015	strong	.	TPST2	23	.	NM_001008566	exon3	c.G399C	p.L133L	GGCGTCCAGCACC	.	PASS	Atlas-SNP
YLPM1	56252	hgsc.bcm.edu	37	14	75248652	75248652	+	Missense_Mutation	SNP	C	C	G	rs45617140	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	127	218	0	0.51004	0	C|0.936;G|0.064	0.064	strong	.	YLPM1	298	.	NM_019589	exon4	c.C1906G	p.P636A	CCTCCCCCTGGAG	.	PASS	Atlas-SNP
DDI1	414301	hgsc.bcm.edu	37	11	103908735	103908735	+	Silent	SNP	G	G	A	rs1052313	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	182	161	0	0.994536	0	G|0.625;A|0.374	0.374	strong	.	DDI1	222	.	NM_001001711	exon1	c.G1185A	p.E395E	AAAAGAGCATTAA	.	PASS	Atlas-SNP
KRT76	51350	hgsc.bcm.edu	37	12	53162638	53162638	+	Silent	SNP	G	G	A	rs2280479	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	61	77	0	0.491935	0	G|0.897;A|0.103	0.103	strong	KRT76,NS,carcinoma,0,1	KRT76	72	1	NM_015848	exon9	c.C1776T	p.S592S	GCTCACGGAGATG	.	PASS	Atlas-SNP
PCDHA8	56140	hgsc.bcm.edu	37	5	140222157	140222157	+	Missense_Mutation	SNP	A	A	C	rs3733705	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	354	101	379	0	0.285311	0	A|0.649;C|0.351	0.351	strong	PCDHA8_ENST00000531613,NS,carcinoma,0,2	PCDHA8	366	2	NM_031856	exon1	c.A1251C	p.R417S	CGAGAGAGTGTCG	.	PASS	Atlas-SNP
LTA	4049	hgsc.bcm.edu	37	6	31541086	31541086	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	50	175	0	0.318471	0	.	.	none	.	LTA	18	.	NM_001159740	exon4	c.C234T	p.L78L	ACTGCTCTGGAGA	.	PASS	Atlas-SNP
MSH6	2956	hgsc.bcm.edu	37	2	48018081	48018081	+	Silent	SNP	A	A	G	rs1800932	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	78	147	0	0.490566	0	A|0.864;G|0.136	0.136	strong	.	MSH6	341	.	NM_000179	exon2	c.A276G	p.P92P	CTCACCAGGAGAT	.	PASS	Atlas-SNP
ZNF536	9745	hgsc.bcm.edu	37	19	31038995	31038995	+	Silent	SNP	T	T	C	rs1469705	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	68	152	0	0.511278	0	T|0.646;C|0.354	0.354	strong	.	ZNF536	424	.	NM_014717	exon4	c.T2469C	p.D823D	CAAGGATGAGATG	.	PASS	Atlas-SNP
PRPH	5630	hgsc.bcm.edu	37	12	49689009	49689009	+	Missense_Mutation	SNP	G	G	A	rs57451017	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	55	107	0	0.491071	0	G|0.986;A|0.014	0.014	strong	.	PRPH	26	.	NM_006262	exon1	c.G26A	p.R9Q	GCCTCCGGGCCGG	.	PASS	Atlas-SNP
OR5AK2	390181	hgsc.bcm.edu	37	11	56756399	56756399	+	Missense_Mutation	SNP	G	G	T	rs10896563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	135	248	0	0.523256	0	G|0.918;T|0.082	0.082	strong	.	OR5AK2	45	.	NM_001005323	exon1	c.G11T	p.G4V	CACTAGGAAACAG	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50744119	50744119	+	Missense_Mutation	SNP	G	G	A	rs7296291	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	71	124	0	0.568	0	G|0.365;A|0.635	0.635	strong	.	FAM186A	181	.	NM_001145475	exon4	c.C6496T	p.H2166Y	TGGCATGCTGGAT	.	PASS	Atlas-SNP
MAS1L	116511	hgsc.bcm.edu	37	6	29455599	29455599	+	Silent	SNP	A	A	G	rs17184114	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	54	85	0	0.5	0	A|0.893;G|0.107	0.107	strong	.	MAS1L	66	.	NM_052967	exon1	c.T81C	p.C27C	AAGGCTACATGAG	.	PASS	Atlas-SNP
SIRPG	55423	hgsc.bcm.edu	37	20	1617069	1617069	+	Silent	SNP	A	A	G	rs2277761	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	411	409	451	1	0.995134	0.00221729	A|0.776;G|0.224	0.224	strong	SIRPG,NS,carcinoma,-1,1	SIRPG	61	1	NM_001039508	exon3	c.T513C	p.H171H	GAAGCCATGGGAC	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40366240	40366240	+	Missense_Mutation	SNP	G	G	A	rs62106922	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	9	17	0	0.5625	0	G|0.948;A|0.052	0.052	strong	.	FCGBP	416	.	NM_003890	exon30	c.C13994T	p.P4665L	GCGTCCGGGCCGC	.	PASS	Atlas-SNP
ARRDC5	645432	hgsc.bcm.edu	37	19	4902754	4902754	+	Silent	SNP	G	G	A	rs2779168	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	272	97	196	0	0.356618	0	G|0.806;A|0.194	0.194	strong	.	ARRDC5	19	.	NM_001080523	exon1	c.C126T	p.I42I	GGTTAAGATCACC	.	PASS	Atlas-SNP
CYP1B1	1545	hgsc.bcm.edu	37	2	38298203	38298203	+	Missense_Mutation	SNP	C	C	G	rs1056836	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	137	189	0	0.985611	0	C|0.487;G|0.513	0.513	strong	CYP1B1,caecum,carcinoma,0,1	CYP1B1	39	1	NM_000104	exon3	c.G1294C	p.V432L	ACTTCACTGGGTC	.	PASS	Atlas-SNP
UCK1	83549	hgsc.bcm.edu	37	9	134401335	134401335	+	Missense_Mutation	SNP	C	C	T	rs2296957	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	93	97	0	1	0	T|0.818;C|0.181;N|0.000;A|0.001	0.818	strong	UCK1_ENST00000372211,NS,lymphoid_neoplasm,0,4	UCK1	29	4	NM_001135954	exon5	c.G538A	p.A180T	TCCTCGCGGGATG	.	PASS	Atlas-SNP
PTPRR	5801	hgsc.bcm.edu	37	12	71155380	71155380	+	Silent	SNP	A	A	G	rs10506608	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	49	189	0	0.335616	0	A|0.948;G|0.052	0.052	strong	.	PTPRR	109	.	NM_002849	exon4	c.T498C	p.F166F	AGACACAAACAGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	51	109	0	0.515152	0	C|0.674;T|0.326	0.326	strong	.	PCLO	1506	.	NM_014510	exon5	c.G7423A	p.V2475I	TTGTAACAGGTAA	.	PASS	Atlas-SNP
KRTAP10-9	386676	hgsc.bcm.edu	37	21	46047857	46047857	+	Missense_Mutation	SNP	C	C	T	rs9980129	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	123	264	0	0.54185	0	C|0.352;T|0.648	0.648	strong	.	KRTAP10-9	24	.	NM_198690	exon1	c.C769T	p.R257C	TCCTCCCGCCAGC	.	PASS	Atlas-SNP
CERS4	79603	hgsc.bcm.edu	37	19	8326944	8326944	+	Missense_Mutation	SNP	G	G	A	rs17160349	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	33	61	0	0.485294	0	A|0.139;C|0.000;G|0.860	0.139	strong	LASS4,NS,carcinoma,0,1	.	.	1	NM_024552	exon12	c.G1136A	p.R379Q	GCCCTCGGAGCCG	.	PASS	Atlas-SNP
RPS14	6208	hgsc.bcm.edu	37	5	149826526	149826526	+	Silent	SNP	C	C	T	rs4841	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	66	104	0	0.673469	0	T|0.198;G|0.151;C|0.606;A|0.044	0.198	strong	.	RPS14	11	.	NM_001025071	exon3	c.G150A	p.K50K	GGTTTCCCTGGGG	.	PASS	Atlas-SNP
ANPEP	290	hgsc.bcm.edu	37	15	90349461	90349461	+	Silent	SNP	G	G	A	rs41276922	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	41	74	0	0.405941	0	G|0.939;A|0.061	0.061	strong	.	ANPEP	124	.	NM_001150	exon2	c.C354T	p.D118D	GATGACGTCAGTG	.	PASS	Atlas-SNP
ANXA9	8416	hgsc.bcm.edu	37	1	150958836	150958836	+	Missense_Mutation	SNP	A	A	G	rs267733	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	76	123	0	0.436782	0	A|0.906;G|0.094	0.094	strong	.	ANXA9	28	.	NM_003568	exon8	c.A497G	p.D166G	TGGATGACATCAC	.	PASS	Atlas-SNP
ASPM	259266	hgsc.bcm.edu	37	1	197091537	197091537	+	Silent	SNP	A	A	T	rs4915337	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	80	171	0	0.519481	0	A|0.212;T|0.788	0.788	strong	.	ASPM	444	.	NM_001206846	exon14	c.T3579A	p.S1193S	TTTAAGAGACATA	.	PASS	Atlas-SNP
NLRP9	338321	hgsc.bcm.edu	37	19	56249672	56249672	+	Silent	SNP	A	A	G	rs56211941	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	71	160	0	0.473333	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
USP24	23358	hgsc.bcm.edu	37	1	55589175	55589175	+	Silent	SNP	C	C	T	rs145599916	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	50	124	0	0.403226	0	C|1.000;T|0.000	0.000	strong	.	USP24	323	.	NM_015306	exon36	c.G4221A	p.A1407A	CTCTCCCGCAATC	.	PASS	Atlas-SNP
ANPEP	290	hgsc.bcm.edu	37	15	90347783	90347783	+	Silent	SNP	C	C	T	rs17240240	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	35	55	1	0.5	0.0181818	C|0.942;T|0.058	0.058	strong	ANPEP,NS,carcinoma,-1,1	ANPEP	124	1	NM_001150	exon5	c.G963A	p.T321T	GGGGCCCGTCACG	.	scavenged	Atlas-SNP
KIAA0141	9812	hgsc.bcm.edu	37	5	141309824	141309824	+	Missense_Mutation	SNP	G	G	A	rs351260	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	91	144	0	0.587097	0	G|0.771;T|0.005	.	strong	.	KIAA0141	44	.	NM_001142603	exon7	c.G739A	p.A247T	TCCATCGCTTTCA	.	PASS	Atlas-SNP
PNRC1	10957	hgsc.bcm.edu	37	6	89793894	89793894	+	Silent	SNP	G	G	C	rs1130809	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	71	155	0	0.563492	0	G|0.746;C|0.254	0.254	strong	.	PNRC1	17	.	NM_006813	exon2	c.G963C	p.T321T	AAAAACGCTCCTC	.	PASS	Atlas-SNP
EHMT1	79813	hgsc.bcm.edu	37	9	140638534	140638534	+	Missense_Mutation	SNP	G	G	A	rs11137198	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	31	40	0	0.62	0	G|0.986;A|0.014	0.014	strong	.	EHMT1	196	.	NM_001145527	exon6	c.G1162A	p.A388T	GATCGCGCCCAGA	.	PASS	Atlas-SNP
PRR5L	79899	hgsc.bcm.edu	37	11	36422701	36422701	+	Silent	SNP	C	C	T	rs78731804	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	45	69	0	0.441176	0	C|0.930;T|0.070	0.070	strong	PRR5L,caecum,carcinoma,0,1	PRR5L	35	1	NM_024841	exon3	c.C30T	p.P10P	TCTGCCCGTCGAG	.	PASS	Atlas-SNP
SPTBN1	6711	hgsc.bcm.edu	37	2	54858664	54858664	+	Silent	SNP	C	C	T	rs2229503	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	38	68	0	0.567164	0	C|0.857;T|0.143	0.143	strong	.	SPTBN1	378	.	NM_003128	exon16	c.C3480T	p.N1160N	GGAGAACAGACAA	.	PASS	Atlas-SNP
SPP1	6696	hgsc.bcm.edu	37	4	88902851	88902851	+	Silent	SNP	T	T	C	rs35382133	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	89	203	0	0.42381	0	T|0.985;C|0.015	0.015	strong	.	SPP1	35	.	NM_001251830	exon7	c.T480C	p.T160T	TTTCACTCCAGTT	.	PASS	Atlas-SNP
IKBKAP	8518	hgsc.bcm.edu	37	9	111653574	111653574	+	Silent	SNP	C	C	G	rs1063110	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	117	112	1	1	0.00892857	G|0.357;C|0.643	0.357	strong	.	IKBKAP	122	.	NM_003640	exon28	c.G3069C	p.L1023L	ACATGTCAGAAAG	.	PASS	Atlas-SNP
AJAP1	55966	hgsc.bcm.edu	37	1	4772717	4772717	+	Missense_Mutation	SNP	G	G	A	rs242056	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	61	73	0	1	0	G|0.523;A|0.477	0.477	strong	.	AJAP1	68	.	NM_018836	exon2	c.G787A	p.G263R	AACAACGGGGAAG	.	PASS	Atlas-SNP
RNF123	63891	hgsc.bcm.edu	37	3	49758302	49758302	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	4	180	0	0.0261438	0	.	.	none	RNF123,NS,carcinoma,0,1	RNF123	100	1	NM_022064	exon37	c.C3713T	p.S1238F	CTGCATCTGCCCA	.	scavenged	Atlas-SNP
GAREM	64762	hgsc.bcm.edu	37	18	30050356	30050356	+	Silent	SNP	C	C	T	rs11664566	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	18	44	0	0.339623	0	C|0.784;T|0.216	0.216	strong	.	.	.	.	NM_022751	exon1	c.G36A	p.K12K	CACATCCTTGAGG	.	PASS	Atlas-SNP
TTC30A	92104	hgsc.bcm.edu	37	2	178482594	178482594	+	Missense_Mutation	SNP	G	G	T	rs61742858	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	553	547	492	0	0.98915	0	G|0.847;T|0.153	0.153	strong	.	TTC30A	60	.	NM_152275	exon1	c.C836A	p.P279H	GCCCTGGGTGGCA	.	PASS	Atlas-SNP
HRH4	59340	hgsc.bcm.edu	37	18	22056766	22056766	+	Missense_Mutation	SNP	C	C	T	rs11665084	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	90	263	0	0.416667	0	C|0.930;T|0.070	0.070	strong	.	HRH4	46	.	NM_021624	exon3	c.C413T	p.A138V	TGGTGGCCGTTTG	.	PASS	Atlas-SNP
LRRC27	80313	hgsc.bcm.edu	37	10	134161517	134161517	+	Missense_Mutation	SNP	C	C	T	rs2474329	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	50	110	0	0.373134	0	C|0.864;T|0.136	0.136	strong	.	LRRC27	64	.	NM_001143757	exon6	c.C583T	p.R195C	ACCCTCCGTGACC	.	PASS	Atlas-SNP
NOL11	25926	hgsc.bcm.edu	37	17	65735660	65735660	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	2	186	0	0.0102041	0	.	.	none	NOL11,NS,lymphoid_neoplasm,+1,1	NOL11	48	1	NM_015462	exon16	c.A1871G	p.Y624C	TCCTGTACCTGAA	.	scavenged	Atlas-SNP
TMX4	56255	hgsc.bcm.edu	37	20	7980390	7980390	+	Silent	SNP	C	C	T	rs1012891	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	56	63	0	1	0	C|0.691;T|0.308	0.308	strong	.	TMX4	39	.	NM_021156	exon4	c.G456A	p.P152P	AGAAGCCGGGGAT	.	PASS	Atlas-SNP
PNLIPRP3	119548	hgsc.bcm.edu	37	10	118231360	118231360	+	Missense_Mutation	SNP	G	G	A	rs10736251	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	174	182	1	0.994286	0.00549451	G|0.030;A|0.970	0.970	strong	.	PNLIPRP3	101	.	NM_001011709	exon10	c.G1141A	p.V381I	GGGGCAGTTAGGA	.	PASS	Atlas-SNP
ADRA1B	147	hgsc.bcm.edu	37	5	159344446	159344446	+	Silent	SNP	C	C	T	rs3730284	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	127	174	1	0.664921	0.00574713	C|0.976;T|0.024	0.024	strong	.	ADRA1B	39	.	NM_000679	exon1	c.C534T	p.I178I	CTCCATCGGGCCT	.	PASS	Atlas-SNP
GLB1L3	112937	hgsc.bcm.edu	37	11	134147600	134147600	+	Silent	SNP	T	T	C	rs76849136	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	54	98	0	0.54	0	T|0.981;C|0.019	0.019	strong	.	GLB1L3	102	.	NM_001080407	exon3	c.T156C	p.N52N	GTTTAATTGGTCT	.	PASS	Atlas-SNP
CBWD3	445571	hgsc.bcm.edu	37	9	70871836	70871836	+	Splice_Site	SNP	C	C	G	rs76283403		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	445	10	560	4	0.0224719	0.00714286	C|0.500;G|0.500	0.500	weak	CBWD3,rectum,carcinoma,-1,1	CBWD3	10	1	NM_201453	exon5	c.431-1C>G	.	TTTTCACGTGCAG	.	scavenged	Atlas-SNP
VSIG10L	147645	hgsc.bcm.edu	37	19	51841417	51841417	+	Missense_Mutation	SNP	C	C	T	rs34380065	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	12	32	0	0.545455	0	C|0.464;T|0.536	0.536	strong	.	VSIG10L	40	.	NM_001163922	exon6	c.G1775A	p.R592Q	CCCAACCGTGTCT	.	PASS	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	66044927	66044927	+	Missense_Mutation	SNP	T	T	C	rs61753610	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	75	138	0	0.441176	0	T|0.875;C|0.125	0.125	strong	.	EYS	527	.	NM_001142801	exon11	c.A1712G	p.Q571R	TTTTCTTGATCAT	.	PASS	Atlas-SNP
MAGEC3	139081	hgsc.bcm.edu	37	X	140983127	140983127	+	Missense_Mutation	SNP	G	G	A	rs176026	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	174	319	1	1	0.0031348	G|0.294;A|0.706	0.706	strong	.	MAGEC3	228	.	NM_138702	exon5	c.G982A	p.A328T	CCTGAAGCATTTT	.	PASS	Atlas-SNP
ATG2A	23130	hgsc.bcm.edu	37	11	64680819	64680819	+	Silent	SNP	G	G	A	rs618006	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	90	93	0	0.989011	0	G|0.401;A|0.599	0.599	strong	.	ATG2A	133	.	NM_015104	exon5	c.C645T	p.D215D	ATGCACGTCCACC	.	PASS	Atlas-SNP
SGOL2	151246	hgsc.bcm.edu	37	2	201437048	201437048	+	Missense_Mutation	SNP	A	A	G	rs17532665	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	89	154	0	0.505682	0	A|0.914;G|0.086	0.086	strong	.	SGOL2	126	.	NM_001160046	exon7	c.A1979G	p.N660S	CTGAAAACATAGA	.	PASS	Atlas-SNP
HCLS1	3059	hgsc.bcm.edu	37	3	121354583	121354583	+	Silent	SNP	G	G	A	rs3772126	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	78	124	0	0.541667	0	G|0.788;A|0.212	0.212	strong	.	HCLS1	78	.	NM_005335	exon9	c.C690T	p.A230A	CTCACCGGCTTCT	.	PASS	Atlas-SNP
SLC14A2	8170	hgsc.bcm.edu	37	18	43262359	43262359	+	Missense_Mutation	SNP	G	G	A	rs3745009	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	126	250	0	0.597156	0	G|0.573;A|0.427	0.427	strong	SLC14A2,NS,carcinoma,0,2	SLC14A2	121	2	NM_001242692	exon21	c.G2638A	p.A880T	AACCCCGCCATCT	.	PASS	Atlas-SNP
C11orf40	143501	hgsc.bcm.edu	37	11	4594648	4594648	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	78	154	0	0.52	0	.	.	none	C11orf40,NS,carcinoma,0,1	C11orf40	37	1	NM_144663	exon2	c.G196C	p.D66H	ACACATCCTTATC	.	PASS	Atlas-SNP
CECR6	27439	hgsc.bcm.edu	37	22	17600420	17600420	+	Missense_Mutation	SNP	C	C	A	rs184892903	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	11	26	0	0.733333	0	.	.	weak	.	CECR6	11	.	NM_031890	exon1	c.G1598T	p.G533V	CCGTAGCCCCCTC	.	PASS	Atlas-SNP
HSD3B7	80270	hgsc.bcm.edu	37	16	30999462	30999462	+	Silent	SNP	T	T	C	rs2305880	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	12	31	0	0.571429	0	T|0.454;C|0.546	0.546	strong	.	HSD3B7	33	.	NM_025193	exon7	c.T1068C	p.R356R	GACCCGTACCATT	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	89979698	89979698	+	Missense_Mutation	SNP	C	C	T	rs4916685	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	149	146	0	0.993333	0	C|0.655;T|0.345	0.345	strong	GPR98,NS,carcinoma,0,1	GPR98	605	1	NM_032119	exon28	c.C5960T	p.P1987L	ACAGACCTGTTAA	.	PASS	Atlas-SNP
USP26	83844	hgsc.bcm.edu	37	X	132161159	132161159	+	Missense_Mutation	SNP	G	G	A	rs35397110	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	133	265	0	0.977941	0	G|0.963;A|0.037	0.037	strong	.	USP26	135	.	NM_031907	exon1	c.C1090T	p.L364F	TTTTAAGATTCAA	.	PASS	Atlas-SNP
ENPP4	22875	hgsc.bcm.edu	37	6	46107752	46107752	+	Missense_Mutation	SNP	C	C	G	rs7451713	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	74	169	0	0.406593	0	C|0.562;G|0.438	0.438	strong	.	ENPP4	44	.	NM_014936	exon2	c.C432G	p.H144Q	CATTCACGATACC	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15870032	15870032	+	Silent	SNP	A	A	G	rs34341838	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	94	166	0	0.51087	0	A|0.972;G|0.028	0.028	strong	.	MYH11	520	.	NM_001040114	exon9	c.T813C	p.Y271Y	TAGCAGATCTGGT	.	PASS	Atlas-SNP
PRAMEF2	65122	hgsc.bcm.edu	37	1	12921209	12921209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	285	6	363	0	0.0210526	0	.	.	none	PRAMEF2,NS,chondrosarcoma,0,1	PRAMEF2	85	1	NM_023014	exon4	c.C1000T	p.R334C	CTGTTCCGCATCA	.	scavenged	Atlas-SNP
FSIP1	161835	hgsc.bcm.edu	37	15	39910167	39910167	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	278	3	250	0	0.0107914	0	.	.	none	FSIP1,extremity,malignant_melanoma,+1,1	FSIP1	53	1	NM_152597	exon11	c.G1468A	p.G490R	TATGTCCAGTCAA	.	scavenged	Atlas-SNP
NADSYN1	55191	hgsc.bcm.edu	37	11	71192439	71192439	+	Silent	SNP	C	C	A	rs59379414	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	67	126	0	0.5	0	C|0.918;A|0.082	0.082	strong	NADSYN1,NS,carcinoma,-1,2	NADSYN1	48	2	NM_018161	exon12	c.C1036A	p.R346R	TTAAGACGAAGTC	.	PASS	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	37	19	49969085	49969085	+	Silent	SNP	C	C	T	rs10853810	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	129	111	0	0.992308	0	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	.	PASS	Atlas-SNP
CACNA2D2	9254	hgsc.bcm.edu	37	3	50513613	50513613	+	Missense_Mutation	SNP	C	C	T	rs41291734	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	24	26	0	0.648649	0	C|0.981;T|0.019	0.019	strong	.	CACNA2D2	82	.	NM_001174051	exon2	c.G224A	p.R75Q	AGACGCCGGGCCC	.	PASS	Atlas-SNP
N4BP2	55728	hgsc.bcm.edu	37	4	40119501	40119501	+	Silent	SNP	T	T	C	rs1128372	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	50	90	0	0.555556	0	T|0.851;C|0.149	0.149	strong	.	N4BP2	166	.	NM_018177	exon8	c.T1677C	p.H559H	CATTCATGGGGTA	.	PASS	Atlas-SNP
RBBP8NL	140893	hgsc.bcm.edu	37	20	60989365	60989365	+	Missense_Mutation	SNP	C	C	T	rs3810553	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	10	5	45	0	0.5	0	C|0.684;T|0.316	0.316	strong	.	.	.	.	NM_080833	exon10	c.G1042A	p.D348N	GAAGGTCCTGCAT	.	PASS	Atlas-SNP
IL17RC	84818	hgsc.bcm.edu	37	3	9974809	9974809	+	Silent	SNP	G	G	A	rs76999397	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	33	77	0	0.611111	0	G|0.968;A|0.032	0.032	strong	IL17RC,NS,carcinoma,0,1	IL17RC	55	1	NM_153461	exon19	c.G1908A	p.A636A	TCACGCGCAGCGG	.	PASS	Atlas-SNP
LY6G6D	58530	hgsc.bcm.edu	37	6	31683157	31683157	+	Missense_Mutation	SNP	T	T	G	rs3749952	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	35	53	0	0.507246	0	T|0.920;G|0.080	0.080	strong	.	LY6G6D	11	.	NM_021246	exon1	c.T25G	p.L9V	GGGATCTTGCTCA	.	PASS	Atlas-SNP
SOLH	6650	hgsc.bcm.edu	37	16	602430	602430	+	Silent	SNP	C	C	T	rs148358614	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	10	34	0	0.625	0	C|0.995;T|0.005	0.005	strong	SOLH,NS,carcinoma,0,1	SOLH	47	1	NM_005632	exon11	c.C2637T	p.F879F	GAAGTTCGTCAGC	.	PASS	Atlas-SNP
POP4	10775	hgsc.bcm.edu	37	19	30104871	30104871	+	Missense_Mutation	SNP	G	G	T	rs61731483	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	57	125	0	0.487179	0	G|0.985;T|0.015	0.015	strong	POP4,NS,carcinoma,0,1	POP4	20	1	NM_006627	exon6	c.G518T	p.R173L	AAGACCGCCTGAA	.	PASS	Atlas-SNP
ITGA11	22801	hgsc.bcm.edu	37	15	68628143	68628143	+	Silent	SNP	C	C	T	rs2306023	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	141	112	0	0.986014	0	C|0.354;T|0.646	0.646	strong	.	ITGA11	110	.	NM_001004439	exon12	c.G1317A	p.R439R	GTACACCCGCCCC	.	PASS	Atlas-SNP
DEFB108B	245911	hgsc.bcm.edu	37	11	71548465	71548465	+	Missense_Mutation	SNP	A	A	G	rs12285436	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	581	578	632	1	0.994837	0.00158228	A|0.488;G|0.512	0.512	strong	.	DEFB108B	6	.	NM_001002035	exon2	c.A79G	p.I27V	AAGGAGATCTGTG	.	PASS	Atlas-SNP
WWC2	80014	hgsc.bcm.edu	37	4	184203886	184203886	+	Missense_Mutation	SNP	G	G	C	rs3814422	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	42	62	0	0.5	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
BSG	682	hgsc.bcm.edu	37	19	580665	580665	+	Silent	SNP	T	T	C	rs4682	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	38	79	0	0.38	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
IDUA	3425	hgsc.bcm.edu	37	4	994414	994414	+	Missense_Mutation	SNP	G	G	A	rs3755955	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	106	213	0	0.484018	0	G|0.859;A|0.141	0.141	strong	.	IDUA	33	.	NM_000203	exon3	c.G314A	p.R105Q	CTGGACGGGGCCT	.	PASS	Atlas-SNP
DPH3	285381	hgsc.bcm.edu	37	3	16305674	16305674	+	Silent	SNP	C	C	G	rs14080	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	42	176	1	0.328125	0.00568182	C|0.590;G|0.410	0.410	strong	DPH3,NS,adenoma,0,1	DPH3	7	1	NM_206831	exon2	c.G171C	p.V57V	ATAAATCACTTTT	.	scavenged	Atlas-SNP
PAPPA	5069	hgsc.bcm.edu	37	9	119158814	119158814	+	Silent	SNP	T	T	C	rs8456	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	111	119	0	0.991071	0	C|0.669;N|0.001	0.669	strong	.	PAPPA	243	.	NM_002581	exon22	c.T4803C	p.D1601D	CTGTGATCTACAA	.	PASS	Atlas-SNP
ENDOD1	23052	hgsc.bcm.edu	37	11	94862577	94862577	+	Missense_Mutation	SNP	G	G	T	rs3740861	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	460	221	404	1	0.480435	0.00247525	G|0.794;T|0.206	0.206	strong	ENDOD1,NS,carcinoma,-1,1	ENDOD1	26	1	NM_015036	exon2	c.G1337T	p.G446V	CCATGGGCGCTAT	.	PASS	Atlas-SNP
ZNF716	441234	hgsc.bcm.edu	37	7	57529392	57529392	+	Missense_Mutation	SNP	A	A	C	rs13235676	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	58	41	0	0.983051	0	A|0.591;C|0.409	0.409	strong	.	ZNF716	207	.	NM_001159279	exon4	c.A1225C	p.K409Q	CCCTACAAATGTG	.	PASS	Atlas-SNP
SLC6A17	388662	hgsc.bcm.edu	37	1	110738296	110738296	+	Silent	SNP	G	G	A	rs2784140	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	157	196	0	1	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
UBXN6	80700	hgsc.bcm.edu	37	19	4457650	4457650	+	Silent	SNP	C	C	T	rs1044510	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	17	32	0	0.369565	0	C|0.660;T|0.340	0.340	strong	.	UBXN6	27	.	NM_025241	exon1	c.G45A	p.K15K	CGCGCTCTTGAAC	.	PASS	Atlas-SNP
GUCY1A2	2977	hgsc.bcm.edu	37	11	106647224	106647224	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	2	174	0	0.0108108	0	.	.	none	GUCY1A2,NS,carcinoma,+1,2	GUCY1A2	180	2	NM_000855	exon6	c.G1777A	p.A593T	TCAAGGCCATCAG	.	scavenged	Atlas-SNP
ZBTB3	79842	hgsc.bcm.edu	37	11	62519806	62519806	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	54	80	0	0.534653	0	.	.	none	.	ZBTB3	47	.	NM_024784	exon2	c.A1481G	p.H494R	CGTGTGTGCACCG	.	PASS	Atlas-SNP
GP6	51206	hgsc.bcm.edu	37	19	55527081	55527081	+	Missense_Mutation	SNP	C	C	T	rs2304167	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	76	96	0	1	0	C|0.236;N|0.000	.	strong	.	GP6	55	.	NM_016363	exon7	c.G745A	p.A249T	GACTGGCGGTGAT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	47	113	0	0.474747	0	G|0.755;A|0.245	0.245	strong	.	SEMA4B	51	.	NM_020210	exon6	c.G489A	p.M163I	GAACATGGAGAAC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9083124	9083124	+	Silent	SNP	G	G	A	rs12608495	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	79	191	0	0.409326	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
CNTNAP3	79937	hgsc.bcm.edu	37	9	39103743	39103743	+	Missense_Mutation	SNP	C	C	T	rs7852039	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	532	529	539	1	0.994361	0.00185529	C|0.824;T|0.176	0.176	strong	.	CNTNAP3	82	.	NM_033655	exon16	c.G2534A	p.R845H	TTACCACGCAGCT	.	PASS	Atlas-SNP
TACR2	6865	hgsc.bcm.edu	37	10	71176012	71176012	+	Missense_Mutation	SNP	A	A	G	rs5030920	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	74	144	0	0.474359	0	A|0.748;G|0.252	0.252	strong	TACR2,colon,carcinoma,0,1	TACR2	37	1	NM_001057	exon1	c.T68C	p.I23T	GCTGTGATGCCCG	.	PASS	Atlas-SNP
OC90	729330	hgsc.bcm.edu	37	8	133047071	133047071	+	Silent	SNP	G	G	A	rs11779306	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	48	96	0	0.55814	0	G|0.717;A|0.283	0.283	strong	.	OC90	163	.	NM_001080399	exon10	c.C690T	p.H230H	CTGATCGTGGCCT	.	PASS	Atlas-SNP
PNPLA1	285848	hgsc.bcm.edu	37	6	36260858	36260858	+	Silent	SNP	C	C	T	rs2239795	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	72	86	0	0.637168	0	C|0.568;T|0.432	0.432	strong	PNPLA1_ENST00000394571,NS,carcinoma,+2,2	PNPLA1	92	2	NM_001145717	exon3	c.C459T	p.F153F	CTGCTTCGTCCCG	.	PASS	Atlas-SNP
OR51A2	401667	hgsc.bcm.edu	37	11	4976291	4976291	+	Missense_Mutation	SNP	G	G	A	rs55889636	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	371	355	605	0	0.956873	0	G|0.661;A|0.339	0.339	strong	OR51A2,NS,carcinoma,0,1	OR51A2	40	1	NM_001004748	exon1	c.C653T	p.S218F	GTGTAAGACACAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508902	195508902	+	Silent	SNP	C	C	G	rs79929234		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	14	226	2	0.0611354	0.00884956	C|0.500;G|0.500	0.500	weak	MUC4_ENST00000463781,NS,malignant_melanoma,-1,2	MUC4	1505	2	NM_018406	exon2	c.G9549C	p.T3183T	AAGAGGCGTGGTG	.	scavenged	Atlas-SNP
TECRL	253017	hgsc.bcm.edu	37	4	65274937	65274937	+	Missense_Mutation	SNP	G	G	A	rs61744866	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	78	123	0	0.516556	0	G|0.942;A|0.058	0.058	strong	TECRL,NS,carcinoma,+1,1	TECRL	106	1	NM_001010874	exon1	c.C133T	p.P45S	TTAGAGGGCCCGC	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2162839	2162839	+	Silent	SNP	T	T	C	rs2099534	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	22	35	0	0.431373	0	T|0.971;C|0.029	0.029	strong	PKD1,NS,carcinoma,0,1	PKD1	184	1	NM_000296	exon13	c.A3111G	p.L1037L	CAGTGCTAGCGTG	.	PASS	Atlas-SNP
MSH6	2956	hgsc.bcm.edu	37	2	48023115	48023115	+	Silent	SNP	T	T	C	rs1800935	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	66	137	0	0.420382	0	T|0.789;C|0.211	0.211	strong	.	MSH6	341	.	NM_000179	exon3	c.T540C	p.D180D	TGCAGATGAAGCC	.	PASS	Atlas-SNP
STK36	27148	hgsc.bcm.edu	37	2	219544388	219544388	+	Missense_Mutation	SNP	A	A	G	rs1863703	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	82	131	0	0.5	0	A|0.834;G|0.166	0.166	strong	.	STK36	111	.	NM_015690	exon8	c.A884G	p.K295R	CCCCCAAGGGTAA	.	PASS	Atlas-SNP
BIN2	51411	hgsc.bcm.edu	37	12	51685831	51685831	+	Silent	SNP	T	T	C	rs3210837	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	106	213	0	0.490741	0	T|0.232;C|0.768	0.768	strong	.	BIN2	58	.	NM_016293	exon10	c.A1059G	p.E353E	GGCCCTTTCAGTG	.	PASS	Atlas-SNP
SRP14	6727	hgsc.bcm.edu	37	15	40328665	40328665	+	Silent	SNP	G	G	A	rs8208	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	165	133	1	0.993976	0.0075188	G|0.439;A|0.561	0.561	strong	SRP14,pharynx,carcinoma,+2,1	SRP14	11	1	NM_003134	exon5	c.C280T	p.L94L	TCTTCAGCCCATC	.	PASS	Atlas-SNP
LRP2BP	55805	hgsc.bcm.edu	37	4	186299260	186299260	+	Silent	SNP	A	A	G	rs2030802	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	120	148	0	0.591133	0	A|0.641;G|0.359	0.359	strong	LRP2BP,NS,carcinoma,0,1	LRP2BP	34	1	NM_018409	exon1	c.T81C	p.F27F	CTGGAAAAATTTT	.	PASS	Atlas-SNP
KIF27	55582	hgsc.bcm.edu	37	9	86518796	86518796	+	Missense_Mutation	SNP	T	T	C	rs12001918	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	98	197	0	0.5	0	T|0.869;C|0.131	0.131	strong	.	KIF27	103	.	NM_017576	exon4	c.A637G	p.I213V	TGCTGATTGTAAA	.	PASS	Atlas-SNP
PLXDC2	84898	hgsc.bcm.edu	37	10	20506418	20506418	+	Missense_Mutation	SNP	G	G	A	rs3817405	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	96	85	0	0.989691	0	G|0.364;N|0.000	.	strong	.	PLXDC2	108	.	NM_032812	exon11	c.G1186A	p.V396I	ACAACCGTAGGAG	.	PASS	Atlas-SNP
FAM26D	221301	hgsc.bcm.edu	37	6	116875427	116875427	+	Silent	SNP	G	G	A	rs7762318	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	62	105	0	0.666667	0	G|0.359;A|0.641	0.641	strong	.	FAM26D	29	.	NM_001256887	exon3	c.G42A	p.L14L	GATCCTGGCTGGG	.	PASS	Atlas-SNP
SLC38A10	124565	hgsc.bcm.edu	37	17	79255998	79255998	+	Silent	SNP	G	G	A	rs10871494	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	74	141	0	0.540146	0	G|0.845;A|0.155	0.155	strong	SLC38A10_ENST00000374759,NS,carcinoma,0,2	SLC38A10	133	2	NM_001037984	exon5	c.C492T	p.F164F	GAACATGAACACG	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60909060	60909060	+	Silent	SNP	A	A	G	rs13038331	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	218	238	0	0.995434	0	A|0.201;G|0.799	0.799	strong	.	LAMA5	268	.	NM_005560	exon23	c.T2775C	p.P925P	AAGGTCAGGGGAG	.	PASS	Atlas-SNP
ZDHHC7	55625	hgsc.bcm.edu	37	16	85015541	85015541	+	Silent	SNP	G	G	A	rs16975086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	100	246	1	0.458716	0.00406504	G|0.870;A|0.129	0.129	strong	.	ZDHHC7	55	.	NM_001145548	exon5	c.C486T	p.P162P	TTCCCCGGGCTTC	.	PASS	Atlas-SNP
AGBL1	123624	hgsc.bcm.edu	37	15	86807884	86807884	+	Silent	SNP	A	A	C	rs11856833	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	53	121	0	0.46087	0	A|0.876;C|0.124	0.124	strong	.	AGBL1	151	.	NM_152336	exon10	c.A1344C	p.V448V	CAAAGTAATAGAT	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170175334	170175334	+	Missense_Mutation	SNP	T	T	C	rs2229263	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	82	152	0	0.455556	0	T|0.548;G|0.057	.	strong	.	LRP2	751	.	NM_004525	exon3	c.A248G	p.N83S	CAGGAGTTGGGGA	.	PASS	Atlas-SNP
MYPN	84665	hgsc.bcm.edu	37	10	69933969	69933969	+	Missense_Mutation	SNP	G	G	A	rs7916821	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	121	221	0	0.489879	0	G|0.638;A|0.362	0.362	strong	.	MYPN	189	.	NM_032578	exon11	c.G2120A	p.S707N	CATCCAGTAAGCA	.	PASS	Atlas-SNP
GCNT2	2651	hgsc.bcm.edu	37	6	10556872	10556872	+	Silent	SNP	C	C	T	rs2230906	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	97	128	0	0.544944	0	C|0.905;T|0.095	0.095	strong	.	GCNT2	123	.	NM_001491	exon1	c.C216T	p.C72C	TTCTTGCAAGGAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	278	134	265	0	0.482014	0	T|0.751;C|0.249	0.249	strong	.	MUC16	4315	.	NM_024690	exon3	c.A9643G	p.S3215G	TGATGCTGGGTTC	.	PASS	Atlas-SNP
RNASE3	6037	hgsc.bcm.edu	37	14	21360216	21360216	+	Missense_Mutation	SNP	C	C	G	rs2073342	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	93	189	0	0.570552	0	C|0.360;G|0.639	0.639	strong	.	RNASE3	24	.	NM_002935	exon2	c.C371G	p.T124R	ACTGCACGTATGC	.	PASS	Atlas-SNP
NFASC	23114	hgsc.bcm.edu	37	1	204970302	204970302	+	Silent	SNP	T	T	C	rs4951151	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	157	137	1	0.993671	0.00729927	T|0.790;C|0.210	0.210	strong	NFASC_ENST00000339876,NS,carcinoma,0,1	NFASC	396	1	NM_001005388	exon26	c.T3024C	p.P1008P	AGCCCCTGATGAG	.	PASS	Atlas-SNP
RAD21L1	642636	hgsc.bcm.edu	37	20	1221038	1221038	+	Silent	SNP	T	T	C	rs16992733	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	57	93	0	0.513514	0	T|0.914;C|0.086	0.086	strong	.	RAD21L1	51	.	NM_001136566	exon8	c.T816C	p.T272T	ATCAACTGAAGAG	.	PASS	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	37	4	85708792	85708792	+	Silent	SNP	G	G	A	rs34548715	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	57	150	0	0.445312	0	G|0.962;A|0.038	0.038	strong	.	WDFY3	314	.	NM_014991	exon23	c.C3744T	p.Y1248Y	ACCAATGTAGGCA	.	PASS	Atlas-SNP
UGT2B28	54490	hgsc.bcm.edu	37	4	70146230	70146230	+	Silent	SNP	G	G	A	rs13139691	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	193	266	0	1	0	G|0.337;A|0.663	0.663	strong	UGT2B28,colon,carcinoma,0,1	UGT2B28	101	1	NM_053039	exon1	c.G12A	p.K4K	TCTGAAGTGGACT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506147	195506147	+	Missense_Mutation	SNP	G	G	A	rs200473856	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	17	216	2	0.386364	0.00925926	G|0.981;A|0.019	0.019	strong	MUC4_ENST00000463781,NS,lymphoid_neoplasm,0,1	MUC4	1505	1	NM_018406	exon2	c.C12304T	p.L4102F	AGGAAAGGCTGGT	.	scavenged	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13894894	13894894	+	Missense_Mutation	SNP	T	T	A	rs4701997	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	98	60	0	1	0	T|0.517;A|0.483	0.483	strong	DNAH5,NS,carcinoma,0,1	DNAH5	868	1	NM_001369	exon16	c.A2296T	p.I766L	CAGGTATTTTTGA	.	PASS	Atlas-SNP
SEMA3E	9723	hgsc.bcm.edu	37	7	82996931	82996931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	112	249	0	0.480687	0	.	.	none	.	SEMA3E	125	.	NM_012431	exon17	c.C2299T	p.R767C	GCAGGCGGTAATG	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1258033	1258033	+	Missense_Mutation	SNP	G	G	T	rs41292285	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	64	121	0	0.512	0	G|0.992;T|0.008	0.008	strong	.	CACNA1H	317	.	NM_021098	exon16	c.G3175T	p.A1059S	TCCCTGGCCGTGA	.	PASS	Atlas-SNP
SOLH	6650	hgsc.bcm.edu	37	16	602647	602647	+	Missense_Mutation	SNP	C	C	T	rs200960455	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	9	37	0	0.45	0	.	.	weak	.	SOLH	47	.	NM_005632	exon12	c.C2780T	p.P927L	CAGAGCCGCCGGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	27	79	0	0.421875	0	T|0.788;C|0.212	0.212	strong	.	C8orf34	170	.	NM_052958	exon6	c.T927C	p.S309S	CTCTAGTCCTGCA	.	PASS	Atlas-SNP
KAT7	11143	hgsc.bcm.edu	37	17	47903381	47903381	+	Silent	SNP	C	C	T	rs61749929	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	92	157	0	0.44878	0	C|0.879;T|0.121	0.121	strong	.	.	.	.	NM_007067	exon13	c.C1500T	p.V500V	CAAAGTCGAAGAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9087758	9087758	+	Missense_Mutation	SNP	G	G	A	rs12611293	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	463	229	479	0	0.4946	0	G|0.812;A|0.188	0.188	strong	.	MUC16	4315	.	NM_024690	exon1	c.C4057T	p.H1353Y	TTGGATGGTTTTC	.	PASS	Atlas-SNP
NEURL4	84461	hgsc.bcm.edu	37	17	7230845	7230845	+	Missense_Mutation	SNP	G	G	T	rs11655578	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	44	75	0	0.517647	0	G|0.844;T|0.156	0.156	strong	.	NEURL4	192	.	NM_001005408	exon2	c.C641A	p.P214H	GGAGTAGGGGGGC	.	PASS	Atlas-SNP
ABTB1	80325	hgsc.bcm.edu	37	3	127394820	127394820	+	Silent	SNP	C	C	T	rs35703629	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	42	107	0	0.415842	0	C|0.848;T|0.152	0.152	strong	.	ABTB1	36	.	NM_172027	exon4	c.C183T	p.R61R	AGCCCGCTGCGAG	.	PASS	Atlas-SNP
OTUD7A	161725	hgsc.bcm.edu	37	15	31776837	31776837	+	Missense_Mutation	SNP	C	C	G	rs76704217	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	59	126	0	0.430657	0	C|0.970;G|0.030	0.030	strong	.	OTUD7A	89	.	NM_130901	exon11	c.G1441C	p.V481L	TGCACACCGAATC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507379	195507379	+	Missense_Mutation	SNP	G	G	C	rs371423143		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	30	20	0	0.227273	0	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C11072G	p.T3691R	TGACCTGTGGATG	.	scavenged	Atlas-SNP
DOK7	285489	hgsc.bcm.edu	37	4	3494847	3494847	+	Silent	SNP	G	G	A	rs6831659	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	15	73	0	0.681818	0	G|0.740;A|0.260	0.260	strong	.	DOK7	44	.	NM_173660	exon7	c.G1134A	p.A378A	AGCAGCGGGGGCC	.	PASS	Atlas-SNP
LZTS1	11178	hgsc.bcm.edu	37	8	20110641	20110641	+	Silent	SNP	C	C	T	rs2645386	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	21	57	0	0.552632	0	C|0.631;T|0.369	0.369	strong	.	LZTS1	72	.	NM_021020	exon2	c.G801A	p.E267E	CTTCTGCTCCAGC	.	PASS	Atlas-SNP
CYP2A7	1549	hgsc.bcm.edu	37	19	41383134	41383134	+	Silent	SNP	A	A	G	rs147847954	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	112	260	0	0.440945	0	A|0.978;G|0.022	0.022	strong	.	CYP2A7	71	.	NM_000764	exon7	c.T1122C	p.V374V	CTTTTTAACCCTG	.	PASS	Atlas-SNP
SUOX	6821	hgsc.bcm.edu	37	12	56397802	56397802	+	Missense_Mutation	SNP	C	C	T	rs141735896	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	270	131	263	0	0.485185	0	C|0.997;T|0.003	0.003	strong	.	SUOX	33	.	NM_000456	exon6	c.C629T	p.P210L	TCACACCCAACCC	.	PASS	Atlas-SNP
IFT140	9742	hgsc.bcm.edu	37	16	1634385	1634385	+	Missense_Mutation	SNP	C	C	T	rs34762152	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	17	20	0	0.447368	0	T|0.088;G|0.000;C|0.912;A|0.000	0.088	strong	.	IFT140	128	.	NM_014714	exon11	c.G1192A	p.V398I	AGATGACGCTGTT	.	PASS	Atlas-SNP
PTPN1	5770	hgsc.bcm.edu	37	20	49195749	49195749	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	24	58	0	0.333333	0	.	.	none	.	PTPN1	36	.	NM_002827	exon7	c.G747A	p.V249V	GAAAGTGCTGTTA	.	PASS	Atlas-SNP
CST4	1472	hgsc.bcm.edu	37	20	23666588	23666588	+	Silent	SNP	G	G	A	rs143990199	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235	114	207	0	0.485106	0	G|0.992;A|0.008	0.008	strong	.	CST4	37	.	NM_001899	exon3	c.C369T	p.Y123Y	AACTTCGTAGATC	.	PASS	Atlas-SNP
AATK	9625	hgsc.bcm.edu	37	17	79093822	79093822	+	Missense_Mutation	SNP	A	A	G	rs36000545	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	18	56	0	0.545455	0	A|0.631;G|0.369	0.369	strong	.	AATK	102	.	NM_001080395	exon12	c.T3797C	p.F1266S	CTAAGGAACGTAG	.	PASS	Atlas-SNP
MED13L	23389	hgsc.bcm.edu	37	12	116408538	116408538	+	Silent	SNP	A	A	G	rs2304460	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	61	109	0	0.445255	0	A|0.842;G|0.158	0.158	strong	MED13L,NS,carcinoma,0,1	MED13L	193	1	NM_015335	exon27	c.T5928C	p.T1976T	CAGTGCAGTACTT	.	PASS	Atlas-SNP
VRK1	7443	hgsc.bcm.edu	37	14	97321689	97321689	+	Silent	SNP	C	C	T	rs2230532	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	36	84	0	0.423529	0	C|0.650;T|0.350	0.350	strong	.	VRK1	34	.	NM_003384	exon8	c.C705T	p.G235G	CAATGGCGTGGGT	.	PASS	Atlas-SNP
FXYD3	5349	hgsc.bcm.edu	37	19	35612159	35612159	+	Missense_Mutation	SNP	C	C	G	rs2290649	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244	134	217	1	0.54918	0.00460829	C|0.741;G|0.259	0.259	strong	.	FXYD3	15	.	NM_001136010	exon5	c.C107G	p.P36R	AGAGCCCGTGCCC	.	PASS	Atlas-SNP
SPTBN2	6712	hgsc.bcm.edu	37	11	66481633	66481633	+	Silent	SNP	G	G	A	rs34775878	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	63	148	0	0.466667	0	G|0.922;A|0.078	0.078	strong	.	SPTBN2	188	.	NM_006946	exon6	c.C585T	p.N195N	ATTGACGTTGGGA	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187534375	187534375	+	Silent	SNP	A	A	G	rs2249917	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	30	65	0	0.416667	0	T|0.006;G|0.430	0.430	strong	.	FAT1	500	.	NM_005245	exon13	c.T9351C	p.D3117D	GTTCACATCTTCT	.	PASS	Atlas-SNP
ASCL3	56676	hgsc.bcm.edu	37	11	8959511	8959511	+	Silent	SNP	T	T	G	rs4910179	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	112	79	0	1	0	T|0.395;G|0.605	0.605	strong	.	ASCL3	19	.	NM_020646	exon2	c.A198C	p.G66G	GTAATTTCCCAGG	.	PASS	Atlas-SNP
AFAP1L2	84632	hgsc.bcm.edu	37	10	116060387	116060387	+	Silent	SNP	T	T	C	rs2286396	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	45	98	0	0.523256	0	A|0.000;C|0.679;G|0.000;T|0.320	0.679	strong	.	AFAP1L2	90	.	NM_032550	exon14	c.A1605G	p.R535R	GTACACTCGGTCA	.	PASS	Atlas-SNP
CPXCR1	53336	hgsc.bcm.edu	37	X	88008807	88008807	+	Missense_Mutation	SNP	G	G	A	rs5984611	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	154	0	1	0	0|0.003;A|0.269	0.269	strong	.	CPXCR1	83	.	NM_001184771	exon3	c.G392A	p.R131H	AAACTCGTTTTCG	.	PASS	Atlas-SNP
MAST2	23139	hgsc.bcm.edu	37	1	46500613	46500613	+	Silent	SNP	T	T	C	rs17855317	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	101	188	0	0.587209	0	A|0.000;C|0.179;T|0.821	0.179	strong	MAST2_ENST00000361297,NS,carcinoma,0,1	MAST2	136	1	NM_015112	exon29	c.T4272C	p.T1424T	AGCCACTTCTCGC	.	PASS	Atlas-SNP
TMTC2	160335	hgsc.bcm.edu	37	12	83290083	83290083	+	Missense_Mutation	SNP	G	G	A	rs35725509	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	43	121	0	0.401869	0	G|0.994;A|0.006	0.006	strong	.	TMTC2	100	.	NM_152588	exon3	c.G1141A	p.V381I	AACGATGTATCAC	.	PASS	Atlas-SNP
CAPN5	726	hgsc.bcm.edu	37	11	76796082	76796082	+	Silent	SNP	G	G	A	rs368891933		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	40	69	0	0.634921	0	.	.	weak	.	CAPN5	67	.	NM_004055	exon2	c.G150A	p.R50R	CGTCAGGTGGAAG	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324921	31324921	+	Silent	SNP	C	C	T	rs1050459	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	84	87	0	0.446809	0	C|0.873;T|0.127	0.127	strong	.	HLA-B	54	.	NM_005514	exon1	c.G15A	p.A5A	TCGGGGCGCCATG	.	PASS	Atlas-SNP
GSDMA	284110	hgsc.bcm.edu	37	17	38121993	38121993	+	Missense_Mutation	SNP	G	G	A	rs3894194	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	51	106	0	0.414634	0	G|0.576;T|0.004	.	strong	.	GSDMA	26	.	NM_178171	exon2	c.G53A	p.R18Q	ACCCTCGAGGGGA	.	PASS	Atlas-SNP
PER1	5187	hgsc.bcm.edu	37	17	8048283	8048283	+	Silent	SNP	G	G	A	rs2735611	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	39	73	0	0.52	0	G|0.356;A|0.644	0.644	strong	.	PER1	104	.	NM_002616	exon18	c.C2247T	p.G749G	GGCTAGGCCAGGC	.	PASS	Atlas-SNP
ZNF224	7767	hgsc.bcm.edu	37	19	44611420	44611420	+	Silent	SNP	A	A	G	rs4508518	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	55	67	0	0.514019	0	A|0.277;G|0.723	0.723	strong	.	ZNF224	70	.	NM_013398	exon6	c.A1107G	p.E369E	GGGAGAAAAGCCA	.	PASS	Atlas-SNP
C16orf71	146562	hgsc.bcm.edu	37	16	4797457	4797457	+	Missense_Mutation	SNP	C	C	T	rs17853375	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	56	127	0	0.451613	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
WFIKKN2	124857	hgsc.bcm.edu	37	17	48913478	48913478	+	Silent	SNP	C	C	T	rs77632597	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	231	102	235	0	0.441558	0	C|0.964;T|0.036	0.036	strong	WFIKKN2,NS,carcinoma,0,1	WFIKKN2	69	1	NM_175575	exon1	c.C180T	p.S60S	ACAGAGCACCTGC	.	PASS	Atlas-SNP
WBSCR28	135886	hgsc.bcm.edu	37	7	73275565	73275565	+	Missense_Mutation	SNP	T	T	A	rs11770052	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	42	80	0	0.506024	0	T|0.385;A|0.615	0.615	strong	.	WBSCR28	24	.	NM_182504	exon1	c.T41A	p.I14N	TGGGGATCCTGTT	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	63047793	63047793	+	Silent	SNP	C	C	T	rs4775538	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	64	120	0	0.503937	0	C|0.774;T|0.226	0.226	strong	.	TLN2	253	.	NM_015059	exon34	c.C4539T	p.I1513I	CCGCATCGCCTCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509497	195509497	+	Missense_Mutation	SNP	G	G	A	rs201925754		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	26	106	10	0.12381	0.0943396	G|0.998;A|0.002	0.002	weak	MUC4_ENST00000463781,NS,carcinoma,-1,3	MUC4	1505	3	NM_018406	exon2	c.C8954T	p.A2985V	GTGGATGCTGAGG	.	scavenged	Atlas-SNP
OR1L8	138881	hgsc.bcm.edu	37	9	125330678	125330678	+	Missense_Mutation	SNP	T	T	G	rs10985704	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	45	83	0	0.48913	0	T|0.381;G|0.619	0.619	strong	.	OR1L8	90	.	NM_001004454	exon1	c.A79C	p.T27P	AGAGTGTCTTTTG	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121698871	121698871	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	8	80	0	0.091954	0	.	.	none	PTPRZ1_ENST00000393386,NS,carcinoma,0,2	PTPRZ1	605	2	NM_002851	exon28	c.A6546C	p.E2182D	ACTTGAAGTGAGG	.	PASS	Atlas-SNP
SIRPB2	284759	hgsc.bcm.edu	37	20	1459246	1459246	+	Missense_Mutation	SNP	C	C	T	rs6033876	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	21	58	0	0.333333	0	C|0.957;T|0.043	0.043	strong	.	SIRPB2	50	.	NM_001122962	exon3	c.G458A	p.G153E	GGGTCCCCAGCTC	.	PASS	Atlas-SNP
SMC6	79677	hgsc.bcm.edu	37	2	17897488	17897488	+	Missense_Mutation	SNP	T	T	C	rs35195207	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	191	178	1	1	0.00561798	T|0.825;C|0.175	0.175	strong	.	SMC6	102	.	NM_001142286	exon15	c.A1390G	p.R464G	GTTGCCTCTGATT	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	37	6	38903421	38903421	+	Silent	SNP	G	G	A	rs61748646	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	23	40	0	0.522727	0	G|0.980;A|0.020	0.020	strong	.	DNAH8	1239	.	NM_001206927	exon77	c.G11511A	p.R3837R	TAAGCGGAAGATG	.	PASS	Atlas-SNP
TET1	80312	hgsc.bcm.edu	37	10	70332580	70332580	+	Missense_Mutation	SNP	A	A	G	rs10823229	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	27	61	0	0.428571	0	A|0.718;G|0.282	0.282	strong	.	TET1	255	.	NM_030625	exon2	c.A485G	p.D162G	TGCAAGACACCCA	.	PASS	Atlas-SNP
D2HGDH	728294	hgsc.bcm.edu	37	2	242690770	242690770	+	Silent	SNP	T	T	C	rs141343442	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	56	116	0	0.509091	0	T|0.973;C|0.027	0.027	strong	.	D2HGDH	39	.	NM_152783	exon8	c.T1107C	p.D369D	GACCGATGGGACC	.	PASS	Atlas-SNP
IRF2BP2	359948	hgsc.bcm.edu	37	1	234743237	234743237	+	Silent	SNP	G	G	A	rs7543281	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	72	129	0	0.525547	0	G|0.884;A|0.116	0.116	strong	.	IRF2BP2	37	.	NM_182972	exon2	c.C1410T	p.G470G	TCTGGGGCCCAGC	.	PASS	Atlas-SNP
EXOC6	54536	hgsc.bcm.edu	37	10	94608319	94608319	+	Missense_Mutation	SNP	C	C	T	rs139196824	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	27	70	0	0.428571	0	C|0.984;T|0.016	0.016	strong	.	EXOC6	147	.	NM_019053	exon1	c.C29T	p.T10I	TGGGCACCGTCCC	.	PASS	Atlas-SNP
SLC4A9	83697	hgsc.bcm.edu	37	5	139745154	139745154	+	Silent	SNP	T	T	C	rs6860077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	328	103	335	0	0.314024	0	T|0.282;C|0.718	0.718	strong	.	SLC4A9	125	.	NM_001258428	exon12	c.T1773C	p.I591I	CGACATTGTAAGC	.	PASS	Atlas-SNP
SLC35G6	643664	hgsc.bcm.edu	37	17	7386030	7386030	+	Missense_Mutation	SNP	C	C	T	rs71360891	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	293	10	263	9	0.0341297	0.0342205	A|1.000;|0.000	.	alt	POLR2A_ENST00000412468,caecum,carcinoma,0,1	.	.	1	NM_001102614	exon2	c.C727T	p.P243S	CTGCAGCCCCCCG	.	scavenged	Atlas-SNP
RPTOR	57521	hgsc.bcm.edu	37	17	78599562	78599562	+	Silent	SNP	C	C	G	rs17848685	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	65	118	0	0.560345	0	C|0.836;G|0.164	0.164	strong	RPTOR,right_lower_lobe,carcinoma,+1,1	RPTOR	122	1	NM_001163034	exon2	c.C234G	p.T78T	GAAGACCACGCCC	.	PASS	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	37	1	86891073	86891073	+	Missense_Mutation	SNP	G	G	A	rs11580625	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	49	212	0	0.304348	0	G|0.969;A|0.031	0.031	strong	.	CLCA2	102	.	NM_006536	exon2	c.G238A	p.V80I	AGAAGAGTATTTT	.	PASS	Atlas-SNP
MLF2	8079	hgsc.bcm.edu	37	12	6858126	6858126	+	Silent	SNP	G	G	A	rs2302371	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	63	132	0	0.552632	0	G|0.910;A|0.090	0.090	strong	MLF2,NS,carcinoma,0,3	MLF2	26	3	NM_005439	exon8	c.C582T	p.D194D	CCACTCGTCATCA	.	PASS	Atlas-SNP
SH2B1	25970	hgsc.bcm.edu	37	16	28883241	28883241	+	Missense_Mutation	SNP	A	A	G	rs7498665	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	232	87	238	0	0.375	0	A|0.711;G|0.289	0.289	strong	SH2B1,NS,carcinoma,0,1	SH2B1	160	1	NM_001145796	exon6	c.A1450G	p.T484A	CCCCCAACAGGGA	.	PASS	Atlas-SNP
WDR18	57418	hgsc.bcm.edu	37	19	984537	984537	+	Missense_Mutation	SNP	A	A	G	rs61732720	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	11	36	0	0.52381	0	A|0.920;G|0.080	0.080	strong	.	WDR18	20	.	NM_024100	exon1	c.A184G	p.I62V	AATTACATCAGCG	.	PASS	Atlas-SNP
ZNF579	163033	hgsc.bcm.edu	37	19	56089353	56089353	+	Silent	SNP	C	C	T	rs2292812	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	52	135	0	0.485981	0	C|0.562;T|0.438	0.438	strong	.	ZNF579	21	.	NM_152600	exon2	c.G1653A	p.K551K	GTGAGCCTTGCTG	.	PASS	Atlas-SNP
GPD1	2819	hgsc.bcm.edu	37	12	50503269	50503269	+	Silent	SNP	C	C	T	rs836180	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	54	76	0	0.6	0	C|0.726;T|0.274	0.274	strong	.	GPD1	23	.	NM_005276	exon8	c.C1017T	p.I339I	ATTCATCCACTGC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29912345	29912345	+	Missense_Mutation	SNP	A	A	T	rs3180278	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	501	77	492	0	0.153693	0	A|0.898;T|0.102	0.102	strong	.	HLA-A	89	.	NM_001242758	exon5	c.A964T	p.I322F	GCTGTGATCACTG	.	PASS	Atlas-SNP
TRPT1	83707	hgsc.bcm.edu	37	11	63991801	63991801	+	Missense_Mutation	SNP	T	T	C	rs1059440	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	36	70	0	0.553846	0	T|0.849;C|0.151	0.151	strong	.	TRPT1	14	.	NM_001160389	exon6	c.A521G	p.H174R	TCACAATGGGACC	.	PASS	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	37	1	118693217	118693217	+	Silent	SNP	T	T	C	rs1935992	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	60	205	0	0.32967	0	C|0.210;N|0.000	0.210	strong	SPAG17,NS,carcinoma,0,1	SPAG17	263	1	NM_206996	exon3	c.A264G	p.S88S	TTTAGATGAAGCA	.	PASS	Atlas-SNP
CDC6	990	hgsc.bcm.edu	37	17	38450248	38450248	+	Missense_Mutation	SNP	G	G	A	rs4135012	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	88	194	0	0.437811	0	G|0.986;A|0.014	0.014	strong	.	CDC6	53	.	NM_001254	exon6	c.G883A	p.D295N	GGCCAGGATGTAT	.	PASS	Atlas-SNP
EFEMP2	30008	hgsc.bcm.edu	37	11	65638719	65638719	+	Silent	SNP	G	G	A	rs633800	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	88	214	0	0.458333	0	G|0.642;A|0.358	0.358	strong	.	EFEMP2	42	.	NM_016938	exon4	c.C276T	p.H92H	CTCGCCGTGTAGG	.	PASS	Atlas-SNP
OPA1	4976	hgsc.bcm.edu	37	3	193374964	193374964	+	Silent	SNP	T	T	C	rs9851685	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	42	107	0	0.488372	0	T|0.517;C|0.483	0.483	strong	.	OPA1	79	.	NM_130837	exon23	c.T2274C	p.A758A	AGAGGCTGTTAAG	.	PASS	Atlas-SNP
TENM3	55714	hgsc.bcm.edu	37	4	183674697	183674697	+	Silent	SNP	C	C	T	rs17263582	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	51	144	0	0.392308	0	C|0.827;T|0.173	0.173	strong	ODZ3,NS,carcinoma,0,1	.	.	1	NM_001080477	exon20	c.C3957T	p.G1319G	TCTGGGCTCTAAC	.	PASS	Atlas-SNP
AGAP1	116987	hgsc.bcm.edu	37	2	236761396	236761396	+	Missense_Mutation	SNP	C	C	T	rs13006916	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	465	462	461	2	0.993548	0.00433839	C|0.485;T|0.515	0.515	strong	.	AGAP1	95	.	NM_001244888	exon10	c.C1117T	p.R373C	CGTGCCCGTCAGT	.	PASS	Atlas-SNP
KLHL38	340359	hgsc.bcm.edu	37	8	124664873	124664873	+	Silent	SNP	A	A	G	rs7387792	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	119	142	0	0.991667	0	A|0.287;G|0.713	0.713	strong	.	KLHL38	81	.	NM_001081675	exon1	c.T294C	p.H98H	GGCAATATGTGCC	.	PASS	Atlas-SNP
SLC25A23	79085	hgsc.bcm.edu	37	19	6454367	6454367	+	Silent	SNP	G	G	A	rs10402833	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	50	123	0	0.480769	0	G|0.982;A|0.018	0.018	strong	.	SLC25A23	43	.	NM_024103	exon6	c.C762T	p.P254P	TGACTCGGGGGCA	.	PASS	Atlas-SNP
COL16A1	1307	hgsc.bcm.edu	37	1	32165495	32165495	+	Missense_Mutation	SNP	G	G	T	rs2228552	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	180	176	0	0.994475	0	G|0.551;T|0.449	0.449	strong	COL16A1,colon,carcinoma,0,1	COL16A1	137	1	NM_001856	exon4	c.C185A	p.T62K	GCAGACGTCTTCA	.	PASS	Atlas-SNP
SERPINI2	5276	hgsc.bcm.edu	37	3	167189607	167189607	+	Missense_Mutation	SNP	A	A	C	rs17246389	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	41	75	0	0.450549	0	A|0.830;C|0.170	0.170	strong	.	SERPINI2	85	.	NM_001012303	exon3	c.T46G	p.L16V	TCCACAAGAAGAT	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38119213	38119213	+	Missense_Mutation	SNP	G	G	A	rs12628603	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	110	98	0	0.982143	0	G|0.436;A|0.564	0.564	strong	.	TRIOBP	262	.	NM_001039141	exon7	c.G650A	p.S217N	GCCGGAGCGCAGG	.	PASS	Atlas-SNP
TIMM44	10469	hgsc.bcm.edu	37	19	7998386	7998386	+	Missense_Mutation	SNP	G	G	C	rs118048213	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	93	162	0	0.534483	0	G|0.972;C|0.028	0.028	strong	.	TIMM44	47	.	NM_006351	exon7	c.C753G	p.N251K	CACGTTGTTCTCC	.	PASS	Atlas-SNP
R3HCC1L	27291	hgsc.bcm.edu	37	10	99969475	99969475	+	Missense_Mutation	SNP	A	A	C	rs34494334	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	48	96	0	0.564706	0	A|0.813;C|0.187	0.187	strong	.	R3HCC1L	3	.	NM_001256620	exon4	c.A1604C	p.D535A	AAGATGACTCAGG	.	PASS	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136290672	136290672	+	Silent	SNP	G	G	A	rs28571612	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	44	61	0	0.611111	0	G|0.945;A|0.055	0.055	strong	.	ADAMTS13	113	.	NM_139026	exon4	c.G354A	p.P118P	GGACCCGTCCCTG	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88497446	88497446	+	Missense_Mutation	SNP	A	A	G	rs7197071	bycluster;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	29	29	25	0	1	0	A|0.170;G|0.830	0.830	strong	.	ZNF469	121	.	NM_001127464	exon2	c.A3484G	p.K1162E	GGCCCCAAGTGTG	.	PASS	Atlas-SNP
SPRY3	10251	hgsc.bcm.edu	37	X	155004280	155004280	+	Silent	SNP	A	A	G	rs306888	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	74	162	0	0.480519	0	A|0.771;G|0.229	0.229	strong	.	SPRY3	52	.	NM_005840	exon2	c.A747G	p.Q249Q	GTGCCAACAGGGC	.	PASS	Atlas-SNP
WDR83OS	51398	hgsc.bcm.edu	37	19	12780204	12780204	+	Missense_Mutation	SNP	T	T	C	rs117131055	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	30	94	0	0.588235	0	T|0.986;C|0.014	0.014	strong	.	.	.	.	NM_016145	exon1	c.A14G	p.N5S	GACATATTGTTAG	.	PASS	Atlas-SNP
HIPK4	147746	hgsc.bcm.edu	37	19	40886987	40886987	+	Missense_Mutation	SNP	G	G	T	rs79330270	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	33	67	0	0.568965	0	A|0.001;G|0.993;T|0.006	0.006	strong	.	HIPK4	100	.	NM_144685	exon3	c.C911A	p.T304N	GGGAAGGTTAGCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	149	132	0	0.993333	0	G|0.611;A|0.389	0.389	strong	.	KRT82	45	.	NM_033033	exon9	c.C1373T	p.T458M	ACAGGCGTGCTGA	.	PASS	Atlas-SNP
VSTM1	284415	hgsc.bcm.edu	37	19	54545531	54545531	+	Missense_Mutation	SNP	T	T	C	rs2433724	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	140	146	0	0.985915	0	T|0.619;C|0.381	0.381	strong	.	VSTM1	30	.	NM_198481	exon5	c.A487G	p.S163G	GCTCACTGTGCTG	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41223094	41223094	+	Missense_Mutation	SNP	T	T	C	rs1799966	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	65	138	0	0.488722	0	T|0.694;C|0.306	0.306	strong	.	BRCA1	304	.	NM_007300	exon16	c.A4900G	p.S1634G	CTGGACTCTGGGC	.	PASS	Atlas-SNP
AZU1	566	hgsc.bcm.edu	37	19	830820	830820	+	Missense_Mutation	SNP	G	G	A	rs28626600	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	17	31	0	0.435897	0	G|0.933;A|0.067	0.067	strong	AZU1,rectum,carcinoma,0,2	AZU1	31	2	NM_001700	exon4	c.G473A	p.R158H	GCCAGCGCAGTGG	.	PASS	Atlas-SNP
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197485	39197485	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	24	180	0	0.122449	0	.	.	none	.	KRTAP1-1	23	.	NM_030967	exon1	c.T165C	p.C55C	AAATCCACAGAAG	.	PASS	Atlas-SNP
ZNF554	115196	hgsc.bcm.edu	37	19	2833864	2833864	+	Missense_Mutation	SNP	G	G	A	rs867169	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	77	122	0	0.578947	0	G|0.741;A|0.259	0.259	strong	.	ZNF554	47	.	NM_001102651	exon5	c.G631A	p.V211I	GTGGCCGTTCCTC	.	PASS	Atlas-SNP
LRRK1	79705	hgsc.bcm.edu	37	15	101567547	101567547	+	Silent	SNP	G	G	C	rs41319544	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	39	60	0	0.573529	0	G|0.892;C|0.108	0.108	strong	.	LRRK1	310	.	NM_024652	exon18	c.G2487C	p.V829V	GGACGTGGGCAGC	.	PASS	Atlas-SNP
ASPG	374569	hgsc.bcm.edu	37	14	104571054	104571054	+	Missense_Mutation	SNP	C	C	G	rs8012505	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	80	184	0	0.5	0	C|0.778;G|0.222	0.222	strong	.	ASPG	34	.	NM_001080464	exon9	c.C1032G	p.S344R	GCTGAGCCTGGAT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	509	243	502	1	0.477407	0.00199203	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
C15orf27	123591	hgsc.bcm.edu	37	15	76494569	76494569	+	Missense_Mutation	SNP	A	A	G	rs62030189	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	80	140	0	0.529801	0	A|0.996;G|0.004	0.004	strong	.	C15orf27	32	.	NM_152335	exon10	c.A985G	p.S329G	ATGAACAGCTACA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509180	195509180	+	Missense_Mutation	SNP	C	C	G	rs201718547	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	369	21	262	6	0.0569106	0.0229008	C|0.895;G|0.105	0.105	strong	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G9271C	p.V3091L	TGGTGACAGGAAG	.	scavenged	Atlas-SNP
IQSEC3	440073	hgsc.bcm.edu	37	12	274647	274647	+	Silent	SNP	T	T	C	rs4980859	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	87	134	0	0.497143	0	T|0.740;C|0.260	0.260	strong	.	IQSEC3	154	.	NM_001170738	exon10	c.T2757C	p.F919F	CACCTTTTGCAAG	.	PASS	Atlas-SNP
PRKAR2B	5577	hgsc.bcm.edu	37	7	106799997	106799997	+	Silent	SNP	G	G	A	rs257376	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	40	82	0	0.470588	0	G|0.497;A|0.503	0.503	strong	.	PRKAR2B	34	.	NM_002736	exon11	c.G1227A	p.T409T	TGGAACGAACATG	.	PASS	Atlas-SNP
CEBPZ	10153	hgsc.bcm.edu	37	2	37455232	37455232	+	Silent	SNP	C	C	A	rs35414551	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	78	135	0	0.493671	0	C|0.989;A|0.011	0.011	strong	.	CEBPZ	68	.	NM_005760	exon2	c.G1104T	p.V368V	ATGAGCCACGGTA	.	PASS	Atlas-SNP
MAPKAPK2	9261	hgsc.bcm.edu	37	1	206905040	206905040	+	Silent	SNP	C	C	T	rs34526867	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	107	182	0	0.504717	0	C|0.956;T|0.044	0.044	strong	.	MAPKAPK2	45	.	NM_004759	exon8	c.C948T	p.I316I	GACCATCACCGAG	.	PASS	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	333	183	302	1	0.54955	0.00331126	C|0.737;T|0.263	0.263	strong	.	RNASEL	83	.	NM_021133	exon2	c.G1385A	p.R462Q	ACATTTCGGGCAA	.	PASS	Atlas-SNP
STK36	27148	hgsc.bcm.edu	37	2	219563602	219563602	+	Missense_Mutation	SNP	G	G	A	rs12993599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	94	207	0	0.456311	0	G|0.926;A|0.074	0.074	strong	.	STK36	111	.	NM_015690	exon26	c.G3335A	p.R1112Q	CCTATCGGCCCCT	.	PASS	Atlas-SNP
LRRIQ3	127255	hgsc.bcm.edu	37	1	74648329	74648329	+	Missense_Mutation	SNP	G	G	A	rs17591320	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	24	74	0	0.27907	0	G|0.970;A|0.030	0.030	strong	.	LRRIQ3	146	.	NM_001105659	exon3	c.C466T	p.H156Y	CATGATGATCCAG	.	PASS	Atlas-SNP
LARP6	55323	hgsc.bcm.edu	37	15	71125339	71125339	+	Silent	SNP	G	G	A	rs28676469	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	70	113	0	0.492958	0	G|0.929;A|0.071	0.071	strong	.	LARP6	43	.	NM_018357	exon3	c.C528T	p.F176F	GTTGGGGAACAGT	.	PASS	Atlas-SNP
KRT6C	286887	hgsc.bcm.edu	37	12	52863038	52863038	+	Silent	SNP	G	G	A	rs410562	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	64	155	0	0.387879	0	G|0.731;A|0.269	0.269	strong	.	KRT6C	55	.	NM_173086	exon9	c.C1503T	p.S501S	GACACCGCTGGCA	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187629538	187629538	+	Missense_Mutation	SNP	C	C	T	rs3733413	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	68	71	0	1	0	C|0.650;T|0.350	0.350	strong	.	FAT1	500	.	NM_005245	exon2	c.G1444A	p.V482I	TCATGACAGTAGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	53	124	0	0.46087	0	G|0.786;A|0.214	0.214	strong	.	ARGFX	36	.	NM_001012659	exon5	c.G434A	p.R145Q	AGCAACGAAACCA	.	PASS	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117158899	117158899	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	25	207	0	0.094697	0	.	.	none	IGSF3_ENST00000369483,right_upper_lobe,carcinoma,0,5	IGSF3	294	5	NM_001542	exon3	c.T224C	p.M75T	GAGTCCATGGTGC	.	scavenged	Atlas-SNP
GC	2638	hgsc.bcm.edu	37	4	72618323	72618323	+	Missense_Mutation	SNP	G	G	T	rs4588	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	80	157	0	0.526316	0	G|0.785;T|0.215	0.215	strong	.	GC	132	.	NM_001204307	exon12	c.C1364A	p.T455K	AGTTCCGTGGGTG	.	PASS	Atlas-SNP
KATNA1	11104	hgsc.bcm.edu	37	6	149953981	149953981	+	Silent	SNP	C	C	T	rs9800580	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	104	182	0	0.514852	0	C|0.522;T|0.478	0.478	strong	.	KATNA1	34	.	NM_007044	exon3	c.G234A	p.L78L	GCTGTCCAGTTTA	.	PASS	Atlas-SNP
C12orf71	728858	hgsc.bcm.edu	37	12	27234999	27234999	+	Missense_Mutation	SNP	T	T	C	rs708167	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	287	286	232	1	0.996516	0.00431034	T|0.788;C|0.212	0.212	strong	.	C12orf71	20	.	NM_001080406	exon1	c.A418G	p.I140V	GAAATATCTGAAA	.	PASS	Atlas-SNP
YEATS2	55689	hgsc.bcm.edu	37	3	183476685	183476685	+	Missense_Mutation	SNP	G	G	A	rs262993	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	412	162	354	0	0.393204	0	G|0.576;A|0.424	0.424	strong	YEATS2,NS,carcinoma,-1,1	YEATS2	111	1	NM_018023	exon13	c.G1588A	p.V530I	TCTCAGGTCTCCC	.	PASS	Atlas-SNP
CA14	23632	hgsc.bcm.edu	37	1	150234657	150234657	+	Silent	SNP	G	G	T	rs34714364	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	69	112	0	0.413174	0	G|0.897;T|0.103	0.103	strong	.	CA14	37	.	NM_012113	exon4	c.G357T	p.G119G	CCCAGGGGGGTCA	.	PASS	Atlas-SNP
CCIN	881	hgsc.bcm.edu	37	9	36169723	36169723	+	Missense_Mutation	SNP	G	G	A	rs34789048	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	69	125	0	0.584746	0	G|0.924;A|0.076	0.076	strong	.	CCIN	56	.	NM_005893	exon1	c.G224A	p.S75N	ACACCAGTTACCT	.	PASS	Atlas-SNP
TECPR2	9895	hgsc.bcm.edu	37	14	102901201	102901201	+	Missense_Mutation	SNP	A	A	G	rs10149146	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	25	60	0	0.471698	0	A|0.744;G|0.256	0.256	strong	.	TECPR2	114	.	NM_001172631	exon9	c.A2047G	p.I683V	CAGGACATCCTAA	.	PASS	Atlas-SNP
FGFR4	2264	hgsc.bcm.edu	37	5	176517461	176517461	+	Silent	SNP	T	T	G	rs446382	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	17	64	0	0.265625	0	T|0.294;G|0.706	0.706	strong	.	FGFR4	174	.	NM_022963	exon2	c.T162G	p.R54R	TGTGCGTCTGTGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507242	195507242	+	Missense_Mutation	SNP	C	C	A	rs112808291	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	289	53	64	1	0.183391	0.015625	A|1.000;|0.000	1.000	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G11209T	p.A3737S	TGGATGCTGAGGA	.	scavenged	Atlas-SNP
C19orf35	374872	hgsc.bcm.edu	37	19	2278841	2278841	+	Silent	SNP	G	G	A	rs78560055	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	42	89	0	0.407767	0	G|0.993;A|0.007	0.007	strong	.	C19orf35	18	.	NM_198532	exon3	c.C354T	p.D118D	TGGGGCGTCAGCC	.	PASS	Atlas-SNP
IBSP	3381	hgsc.bcm.edu	37	4	88732692	88732692	+	Missense_Mutation	SNP	G	G	A	rs1054627	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	59	99	0	0.491667	0	G|0.781;A|0.219	0.219	strong	.	IBSP	53	.	NM_004967	exon7	c.G584A	p.G195E	GCGGAGGAGACAA	.	PASS	Atlas-SNP
PIH1D1	55011	hgsc.bcm.edu	37	19	49954807	49954807	+	Missense_Mutation	SNP	T	T	G	rs2293012	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	57	39	0	1	0	T|0.332;G|0.668	0.668	strong	.	PIH1D1	23	.	NM_017916	exon1	c.A25C	p.M9L	GCCCCATTCCCAG	.	PASS	Atlas-SNP
GCNT2	2651	hgsc.bcm.edu	37	6	10587056	10587056	+	Silent	SNP	A	A	G	rs71548508	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	134	186	0	0.556017	0	A|0.899;G|0.101	0.101	strong	GCNT2_ENST00000265012,NS,carcinoma,0,1	GCNT2	123	1	NM_145655	exon1	c.A834G	p.L278L	TGTTCTACGTGAC	.	PASS	Atlas-SNP
ZPBP2	124626	hgsc.bcm.edu	37	17	38024626	38024626	+	Silent	SNP	C	C	T	rs11557466	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	43	48	0	1	0	C|0.658;T|0.342	0.342	strong	.	ZPBP2	33	.	NM_199321	exon1	c.C19T	p.L7L	TGCGTCCTACTCT	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	37	6	38805753	38805753	+	Silent	SNP	G	G	A	rs45622336	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	95	123	0	0.549133	0	G|0.995;A|0.005	0.005	strong	DNAH8_ENST00000359357,head_neck,malignant_melanoma,+1,2	DNAH8	1239	2	NM_001206927	exon33	c.G4401A	p.T1467T	TGTTACGTATTCA	.	PASS	Atlas-SNP
TBC1D8	11138	hgsc.bcm.edu	37	2	101656726	101656726	+	Missense_Mutation	SNP	T	T	C	rs2289953	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	62	118	0	0.53913	0	A|0.006;C|0.500	0.500	strong	.	TBC1D8	169	.	NM_001102426	exon6	c.A949G	p.T317A	GCCCCGTGGTGTG	.	PASS	Atlas-SNP
NID1	4811	hgsc.bcm.edu	37	1	236212038	236212038	+	Silent	SNP	G	G	A	rs6665008	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	34	40	0	0.971429	0	G|0.912;A|0.088	0.088	strong	NID1,NS,carcinoma,0,1	NID1	196	1	NM_002508	exon2	c.C477T	p.S159S	GGCCACGGATTCC	.	PASS	Atlas-SNP
TLR2	7097	hgsc.bcm.edu	37	4	154625682	154625682	+	Silent	SNP	C	C	T	rs5743700	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	112	209	0	0.574359	0	C|0.962;T|0.038	0.038	strong	.	TLR2	84	.	NM_003264	exon3	c.C1623T	p.F541F	TGAATTCCTCTCC	.	PASS	Atlas-SNP
USP3	9960	hgsc.bcm.edu	37	15	63866278	63866278	+	Silent	SNP	C	C	T	rs61751107	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	88	179	0	0.460733	0	C|0.988;T|0.012	0.012	strong	.	USP3	37	.	NM_006537	exon10	c.C942T	p.F314F	TATATTCGGAGGC	.	PASS	Atlas-SNP
TMEM245	23731	hgsc.bcm.edu	37	9	111868885	111868885	+	Silent	SNP	G	G	A	rs2271878	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	57	134	0	0.438462	0	G|0.789;A|0.211	0.211	strong	.	.	.	.	NM_032012	exon3	c.C702T	p.S234S	AGCCAGGGATGCT	.	PASS	Atlas-SNP
NARS2	79731	hgsc.bcm.edu	37	11	78189653	78189653	+	Missense_Mutation	SNP	T	T	C	rs116930926	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	71	150	0	0.427711	0	T|0.984;C|0.016	0.016	strong	.	NARS2	62	.	NM_024678	exon8	c.A899G	p.K300R	ATGAATTTGTGAC	.	PASS	Atlas-SNP
AATK	9625	hgsc.bcm.edu	37	17	79102330	79102330	+	Silent	SNP	T	T	C	rs11871062	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	75	131	0	0.513699	0	T|0.922;C|0.078	0.078	strong	.	AATK	102	.	NM_001080395	exon4	c.A354G	p.T118T	CACGTCTGTGGAC	.	PASS	Atlas-SNP
PARS2	25973	hgsc.bcm.edu	37	1	55224131	55224131	+	Missense_Mutation	SNP	T	T	C	rs2270004	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	23	57	0	0.396552	0	T|0.852;C|0.148	0.148	strong	.	PARS2	29	.	NM_152268	exon2	c.A704G	p.N235S	AGCTTGTTGAACA	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149483237	149483237	+	Missense_Mutation	SNP	G	G	A	rs77510079	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	45	90	0	0.505618	0	G|0.917;A|0.083	0.083	strong	.	.	.	.	NM_198455	exon23	c.G3305A	p.G1102E	GCCCTGGGCTGAG	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27687994	27687994	+	Silent	SNP	A	A	G	rs2484173	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	69	149	0	0.466216	0	A|0.406;G|0.594	0.594	strong	.	PTCHD3	140	.	NM_001034842	exon4	c.T1533C	p.S511S	TTGTACAGACCTA	.	PASS	Atlas-SNP
PARS2	25973	hgsc.bcm.edu	37	1	55224751	55224751	+	Missense_Mutation	SNP	C	C	A	rs11577368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	36	107	0	0.507042	0	C|0.879;A|0.121	0.121	strong	.	PARS2	29	.	NM_152268	exon2	c.G84T	p.R28S	GTGAAACCTGCAA	.	PASS	Atlas-SNP
FAM120A	23196	hgsc.bcm.edu	37	9	96238578	96238578	+	Silent	SNP	C	C	T	rs10821135	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	141	145	0	1	0	C|0.447;T|0.553	0.553	strong	FAM120A,NS,carcinoma,+2,2	FAM120A	105	2	NM_014612	exon3	c.C762T	p.H254H	CTTTCACTGGAGT	.	PASS	Atlas-SNP
MIPEP	4285	hgsc.bcm.edu	37	13	24436475	24436475	+	Missense_Mutation	SNP	C	C	T	rs11551114	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	56	217	0	0.363636	0	C|0.909;T|0.091	0.091	strong	MIPEP,colon,carcinoma,-1,1	MIPEP	53	1	NM_005932	exon9	c.G1019A	p.R340Q	ATCCCTCGTATCA	.	PASS	Atlas-SNP
EFCAB7	84455	hgsc.bcm.edu	37	1	63999868	63999868	+	Missense_Mutation	SNP	T	T	C	rs6657480	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	37	111	0	0.397849	0	T|0.741;C|0.259	0.259	strong	.	EFCAB7	45	.	NM_032437	exon6	c.T785C	p.M262T	AGTTAATGGAGCC	.	PASS	Atlas-SNP
DISP2	85455	hgsc.bcm.edu	37	15	40660043	40660043	+	Missense_Mutation	SNP	G	G	T	rs76331864	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	10	22	0	0.454545	0	G|0.977;T|0.023	0.023	strong	.	DISP2	86	.	NM_033510	exon8	c.G1730T	p.G577V	CGGGGGGGCTGGC	.	PASS	Atlas-SNP
VNN2	8875	hgsc.bcm.edu	37	6	133072650	133072650	+	Silent	SNP	A	A	G	rs1883617	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	28	74	0	0.482759	0	A|0.682;G|0.318	0.318	strong	.	VNN2	83	.	NM_004665	exon5	c.T834C	p.G278G	ATAAATACCACTT	.	PASS	Atlas-SNP
C4orf33	132321	hgsc.bcm.edu	37	4	130032843	130032843	+	Missense_Mutation	SNP	A	A	G	rs17351999	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	75	131	0	0.568182	0	A|0.892;G|0.108	0.108	strong	C4orf33,NS,carcinoma,+1,1	C4orf33	15	1	NM_001099783	exon6	c.A497G	p.H166R	TTAGCCATTGCCT	.	PASS	Atlas-SNP
KRT5	3852	hgsc.bcm.edu	37	12	52912870	52912870	+	Silent	SNP	A	A	G	rs17852231	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	97	254	0	0.434978	0	A|0.861;G|0.139	0.139	strong	.	KRT5	88	.	NM_000424	exon2	c.T630C	p.T210T	CCTCACAGTCTTG	.	PASS	Atlas-SNP
FERMT1	55612	hgsc.bcm.edu	37	20	6065729	6065729	+	Missense_Mutation	SNP	C	C	T	rs2232074	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	118	231	0	0.464567	0	C|0.581;T|0.419	0.419	strong	.	FERMT1	106	.	NM_017671	exon12	c.G1577A	p.R526K	TTGTGTCTTTTTG	.	PASS	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21232804	21232804	+	Silent	SNP	G	G	A	rs1041968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	83	172	0	0.463687	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
AKR7A2	8574	hgsc.bcm.edu	37	1	19635011	19635011	+	Missense_Mutation	SNP	C	C	T	rs1043657	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	187	224	0	0.984211	0	C|0.938;T|0.062	0.062	strong	.	AKR7A2	19	.	NM_003689	exon2	c.G424A	p.A142T	CAGGTGCGTGTAG	.	PASS	Atlas-SNP
IFT57	55081	hgsc.bcm.edu	37	3	107937408	107937408	+	Silent	SNP	C	C	T	rs1135897	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	54	102	0	0.461538	0	C|0.914;T|0.086	0.086	strong	.	IFT57	44	.	NM_018010	exon3	c.G468A	p.L156L	ATATTTCAATGCT	.	PASS	Atlas-SNP
MYH9	4627	hgsc.bcm.edu	37	22	36684354	36684354	+	Missense_Mutation	SNP	T	T	C	rs2269529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	48	128	0	0.40678	0	T|0.784;C|0.216	0.216	strong	.	MYH9	225	.	NM_002473	exon34	c.A4876G	p.I1626V	AGTCGATGTGCGC	.	PASS	Atlas-SNP
COBLL1	22837	hgsc.bcm.edu	37	2	165578602	165578602	+	Missense_Mutation	SNP	C	C	T	rs74459242	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	71	130	0	0.546154	0	C|0.971;T|0.029	0.029	strong	.	COBLL1	122	.	NM_014900	exon6	c.G979A	p.V327M	CATCCACGCTCAT	.	PASS	Atlas-SNP
CD200R1L	344807	hgsc.bcm.edu	37	3	112546473	112546473	+	Silent	SNP	G	G	A	rs41511944		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	94	170	0	0.562874	0	.	.	weak	CD200R1L,colon,carcinoma,-2,1	CD200R1L	47	1	NM_001008784	exon3	c.C171T	p.I57I	TAATGCGATAGGA	.	PASS	Atlas-SNP
CGN	57530	hgsc.bcm.edu	37	1	151502427	151502427	+	Missense_Mutation	SNP	C	C	T	rs34834099	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	82	149	0	0.429319	0	C|0.964;T|0.036	0.036	strong	CGN,rectum,carcinoma,0,1	CGN	106	1	NM_020770	exon12	c.C2149T	p.R717W	GGGCAGCGGCGGG	.	PASS	Atlas-SNP
MYLK2	85366	hgsc.bcm.edu	37	20	30409452	30409452	+	Silent	SNP	T	T	C	rs6058469	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	72	200	0	0.39779	0	T|0.904;C|0.096	0.096	strong	.	MYLK2	76	.	NM_033118	exon4	c.T684C	p.I228I	GGGGATTGAGTTC	.	PASS	Atlas-SNP
OR13C5	138799	hgsc.bcm.edu	37	9	107360851	107360851	+	Missense_Mutation	SNP	T	T	C	rs1523678	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	101	180	0	0.492683	0	T|0.634;C|0.366	0.366	strong	.	OR13C5	60	.	NM_001004482	exon1	c.A844G	p.I282V	AGAATATGAATAT	.	PASS	Atlas-SNP
INMT	11185	hgsc.bcm.edu	37	7	30795436	30795436	+	Missense_Mutation	SNP	T	T	G	rs4720015	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	18	40	0	0.409091	0	T|0.209;G|0.791	0.791	strong	.	INMT	38	.	NM_006774	exon3	c.T761G	p.F254C	TCTGCTTCATTGT	.	PASS	Atlas-SNP
EDNRA	1909	hgsc.bcm.edu	37	4	148461071	148461071	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	30	155	0	0.172414	0	.	.	none	EDNRA,NS,carcinoma,-1,2	EDNRA	48	2	NM_001957	exon6	c.G1003A	p.E335K	TATAACGAGATGG	.	PASS	Atlas-SNP
PDGFRL	5157	hgsc.bcm.edu	37	8	17500223	17500223	+	Silent	SNP	T	T	C	rs4705	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	51	92	0	0.485714	0	T|0.548;C|0.452	0.452	strong	.	PDGFRL	27	.	NM_006207	exon7	c.T1041C	p.F347F	AGACTTTGAGACG	.	PASS	Atlas-SNP
TEX26	122046	hgsc.bcm.edu	37	13	31531009	31531009	+	Splice_Site	SNP	G	G	A	rs12857479	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	23	92	0	0.338235	0	G|0.732;A|0.268	0.268	strong	.	.	.	.	NM_152325	exon4	c.313-1G>A	.	TTGATAGGACATT	.	PASS	Atlas-SNP
OR2B2	81697	hgsc.bcm.edu	37	6	27879982	27879982	+	Missense_Mutation	SNP	A	A	G	rs61742093	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	39	100	0	0.464286	0	A|0.943;G|0.057	0.057	strong	.	OR2B2	54	.	NM_033057	exon1	c.T116C	p.I39T	CCAAAGATTGTCA	.	PASS	Atlas-SNP
NARFL	64428	hgsc.bcm.edu	37	16	781633	781633	+	Silent	SNP	G	G	A	rs3829492	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	17	35	0	0.515152	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
ICAM5	7087	hgsc.bcm.edu	37	19	10403368	10403368	+	Missense_Mutation	SNP	G	G	A	rs2228615	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	125	138	0	0.984252	0	G|0.713;A|0.287	0.287	strong	.	ICAM5	53	.	NM_003259	exon5	c.G1042A	p.A348T	GCTGGGGCCCAAG	.	PASS	Atlas-SNP
ZNF234	10780	hgsc.bcm.edu	37	19	44652954	44652954	+	Missense_Mutation	SNP	G	G	A	rs2293587	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	299	144	309	1	0.481605	0.00323625	G|0.660;A|0.340	0.340	strong	.	ZNF234	132	.	NM_006630	exon4	c.G46A	p.V16I	GCTGTGGTCTTCA	.	PASS	Atlas-SNP
DEPDC7	91614	hgsc.bcm.edu	37	11	33053005	33053005	+	Silent	SNP	T	T	C	rs36077875	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	51	122	0	0.5	0	T|0.977;C|0.023	0.023	strong	.	DEPDC7	94	.	NM_001077242	exon5	c.T864C	p.F288F	AAGCTTTCCTGAG	.	PASS	Atlas-SNP
NPAS1	4861	hgsc.bcm.edu	37	19	47548678	47548678	+	Silent	SNP	G	G	A	rs889169	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	15	40	0	0.625	0	G|0.493;A|0.507	0.507	strong	NPAS1,NS,carcinoma,+1,1	NPAS1	32	1	NM_002517	exon11	c.G1542A	p.A514A	CCTGGCGCCTCCC	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32605295	32605295	+	Silent	SNP	C	C	T	rs1129735	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	81	78	0	0.582734	0	C|0.693;T|0.307	0.307	strong	.	HLA-DQA1	52	.	NM_002122	exon1	c.C60T	p.P20P	GAGCCCCTGTGGA	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38983180	38983180	+	Missense_Mutation	SNP	G	G	T	rs35364374	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	35	81	0	0.376344	0	G|0.953;T|0.047	0.047	strong	.	RYR1	708	.	NM_001042723	exon38	c.G6178T	p.G2060C	ACCCTGGGCAGCC	.	PASS	Atlas-SNP
ARHGEF19	128272	hgsc.bcm.edu	37	1	16534255	16534255	+	Missense_Mutation	SNP	C	C	G	rs221057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	39	87	0	0.397959	0	C|0.778;G|0.222	0.222	strong	.	ARHGEF19	49	.	NM_153213	exon4	c.G712C	p.E238Q	GAGCCTCCATTCC	.	PASS	Atlas-SNP
REST	5978	hgsc.bcm.edu	37	4	57796900	57796900	+	Missense_Mutation	SNP	G	G	A	rs2228991	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	78	119	0	0.549296	0	G|0.906;A|0.094	0.094	strong	.	REST	104	.	NM_001193508	exon4	c.G1876A	p.V626I	GGGCCCGTTCAGG	.	PASS	Atlas-SNP
ATP4B	496	hgsc.bcm.edu	37	13	114303764	114303764	+	Silent	SNP	C	C	T	rs17852631	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	129	304	0	0.479554	0	C|0.826;T|0.174	0.174	strong	.	ATP4B	35	.	NM_000705	exon7	c.G801A	p.A267A	GTGCTCCGCCATG	.	PASS	Atlas-SNP
C17orf102	400591	hgsc.bcm.edu	37	17	32906008	32906008	+	Missense_Mutation	SNP	C	C	G	rs58529418	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	29	75	0	0.591837	0	C|0.876;G|0.124	0.124	strong	.	C17orf102	24	.	NM_207454	exon1	c.G292C	p.G98R	AGCCCCCGCGGCC	.	PASS	Atlas-SNP
MDM1	56890	hgsc.bcm.edu	37	12	68707287	68707287	+	Missense_Mutation	SNP	G	G	A	rs2306392	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	134	147	0	1	0	G|0.764;A|0.236	0.236	strong	.	MDM1	74	.	NM_017440	exon11	c.C1655T	p.P552L	TGTTCTGGGGCTG	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32497986	32497986	+	Missense_Mutation	SNP	G	G	A	rs200744795		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	13	62	2	0.062201	0.0322581	.	.	weak	HLA-DRB5,rectum,carcinoma,0,1	HLA-DRB5	31	1	NM_002125	exon1	c.C16T	p.L6F	CAGGGAGCTTCAG	.	scavenged	Atlas-SNP
MBD3L3	653657	hgsc.bcm.edu	37	19	7056571	7056571	+	Missense_Mutation	SNP	G	G	T	rs200589118	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	390	70	105	0	0.179487	0	G|0.747;T|0.253	0.253	strong	MBD3L3,NS,haematopoietic_neoplasm,0,3	MBD3L3	12	3	NM_001164425	exon2	c.C389A	p.A130D	GCACCAGCCCTGT	.	scavenged	Atlas-SNP
RASD2	23551	hgsc.bcm.edu	37	22	35947585	35947585	+	Silent	SNP	C	C	A	rs41279993	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	81	120	0	0.493902	0	C|0.924;A|0.076	0.076	strong	.	RASD2	34	.	NM_014310	exon3	c.C307A	p.R103R	GATAACCGGGAGT	.	PASS	Atlas-SNP
BDH2	56898	hgsc.bcm.edu	37	4	104004064	104004064	+	Silent	SNP	T	T	C	rs79460377	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	46	97	0	0.547619	0	T|0.955;C|0.045	0.045	strong	.	BDH2	18	.	NM_020139	exon8	c.A555G	p.L185L	TTCTTGTAGAGAT	.	PASS	Atlas-SNP
FAM179A	165186	hgsc.bcm.edu	37	2	29221040	29221040	+	Silent	SNP	C	C	T	rs72786173	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	140	203	0	0.507246	0	C|0.978;T|0.022	0.022	strong	.	FAM179A	106	.	NM_199280	exon3	c.C60T	p.C20C	GTACTGCGGGAGC	.	PASS	Atlas-SNP
TDRD10	126668	hgsc.bcm.edu	37	1	154516571	154516571	+	Silent	SNP	T	T	C	rs6678164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	214	183	0	0.995349	0	T|0.094;C|0.906	0.906	strong	.	TDRD10	48	.	NM_182499	exon9	c.T636C	p.A212A	CTGGGCTATGCAC	.	PASS	Atlas-SNP
VAV2	7410	hgsc.bcm.edu	37	9	136640116	136640116	+	Silent	SNP	G	G	A	rs56006146	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	56	103	0	0.448	0	G|0.958;A|0.042	0.042	strong	.	VAV2	165	.	NM_001134398	exon25	c.C2076T	p.S692S	GGTCCCGCTGGCG	.	PASS	Atlas-SNP
UGT2B17	7367	hgsc.bcm.edu	37	4	69417570	69417570	+	Silent	SNP	A	A	G	rs76593659		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	360	153	0	0	0.425	.	.	.	weak	.	UGT2B17	34	.	NM_001077	exon4	c.T1065C	p.Y355Y	CCACTTATACAGT	.	PASS	Atlas-SNP
PIGR	5284	hgsc.bcm.edu	37	1	207109116	207109116	+	Missense_Mutation	SNP	C	C	T	rs2275531	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	58	102	0	0.491525	0	C|0.639;T|0.361	0.361	strong	PIGR,NS,carcinoma,0,1	PIGR	98	1	NM_002644	exon5	c.G1093A	p.G365S	CAGAGCCTCCTGC	.	PASS	Atlas-SNP
ADAMTSL1	92949	hgsc.bcm.edu	37	9	18777422	18777422	+	Silent	SNP	G	G	A	rs45579937	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	41	63	0	0.621212	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
MFN2	9927	hgsc.bcm.edu	37	1	12061598	12061598	+	Silent	SNP	C	C	T	rs41278632	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	79	107	0	0.585185	0	C|0.991;T|0.009	0.009	strong	.	MFN2	83	.	NM_014874	exon9	c.C957T	p.G319G	CCAGGGCATGCCT	.	PASS	Atlas-SNP
OAF	220323	hgsc.bcm.edu	37	11	120099679	120099679	+	Missense_Mutation	SNP	G	G	A	rs2508490	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	57	135	0	0.537736	0	G|0.379;A|0.621	0.621	strong	.	OAF	12	.	NM_178507	exon4	c.G650A	p.R217H	TCTGCCGCTATGG	.	PASS	Atlas-SNP
ANKS1B	56899	hgsc.bcm.edu	37	12	99139559	99139559	+	Silent	SNP	G	G	T	rs61932058	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	59	106	0	0.517544	0	G|0.984;T|0.016	0.016	strong	.	ANKS1B	180	.	NM_181670	exon13	c.C1491A	p.A497A	CCTCTTGGCTTCT	.	PASS	Atlas-SNP
ZFP64	55734	hgsc.bcm.edu	37	20	50769549	50769549	+	Silent	SNP	A	A	G	rs3746413	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	38	77	0	0.493506	0	A|0.821;G|0.179	0.179	strong	.	ZFP64	240	.	NM_018197	exon6	c.T1182C	p.H394H	GTCCCCATGGAAC	.	PASS	Atlas-SNP
HSP90AB1	3326	hgsc.bcm.edu	37	6	44221293	44221293	+	Silent	SNP	C	C	T	rs147025760	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	39	142	0	0.167382	0	C|0.868;T|0.132	0.132	strong	.	HSP90AB1	83	.	NM_007355	exon12	c.C2133T	p.L711L	CCCTCTCGAGGGC	.	PASS	Atlas-SNP
CHST5	23563	hgsc.bcm.edu	37	16	75563330	75563330	+	Missense_Mutation	SNP	G	G	A	rs3826107	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	31	71	0	0.462687	0	G|0.842;A|0.158	0.158	strong	CHST5,NS,carcinoma,+1,4	CHST5	47	4	NM_024533	exon3	c.C953T	p.T318M	TGTGGCGTGAGGG	.	PASS	Atlas-SNP
ACSM2A	123876	hgsc.bcm.edu	37	16	20471450	20471450	+	Missense_Mutation	SNP	G	G	A	rs59292608	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	43	121	0	0.472527	0	G|0.870;A|0.130	0.130	strong	ACSM2A,colon,carcinoma,+1,2	ACSM2A	120	2	NM_001010845	exon3	c.G14A	p.R5Q	GGCTGCGAAAAGT	.	PASS	Atlas-SNP
REPIN1	29803	hgsc.bcm.edu	37	7	150068933	150068933	+	Silent	SNP	T	T	C	rs6722	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	9	21	0	0.529412	0	T|0.574;C|0.426	0.426	strong	REPIN1_ENST00000489432,NS,carcinoma,0,2	REPIN1	74	2	NM_001099695	exon3	c.T774C	p.A258A	CGTAGCTGAGGCC	.	PASS	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	37	11	121028666	121028666	+	Silent	SNP	C	C	T	rs33981325	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	35	64	0	0.660377	0	C|0.978;T|0.022	0.022	strong	TECTA,NS,carcinoma,+1,1	TECTA	329	1	NM_005422	exon13	c.C4422T	p.N1474N	GCGCAACGGGGTG	.	PASS	Atlas-SNP
SLC28A1	9154	hgsc.bcm.edu	37	15	85478729	85478729	+	Missense_Mutation	SNP	G	G	A	rs2242046	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	60	52	0	0.983607	0	G|0.690;A|0.310	0.310	strong	.	SLC28A1	118	.	NM_004213	exon15	c.G1561A	p.D521N	GTCGGCGACAGGA	.	PASS	Atlas-SNP
KIAA1609	57707	hgsc.bcm.edu	37	16	84516309	84516309	+	Silent	SNP	G	G	A	rs433293	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	105	187	0	0.477273	0	G|0.625;A|0.375	0.375	strong	KIAA1609,NS,carcinoma,0,1	KIAA1609	39	1	NM_020947	exon6	c.C966T	p.N322N	GCATCTGTTGTCC	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54745978	54745978	+	Silent	SNP	T	T	C	rs1052964	bycluster;byfrequency;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	674	335	1282	3	0.497033	0.00234009	T|0.500;C|0.500	0.500	strong	A2RRG4_HUMAN,NS,carcinoma,-1,1	LILRA6	75	1	NM_024318	exon3	c.A279G	p.A93A	TCTCCCTGCATGG	.	PASS	Atlas-SNP
NUP98	4928	hgsc.bcm.edu	37	11	3723781	3723781	+	Missense_Mutation	SNP	G	G	C	rs35404087	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	86	155	0	0.5	0	G|0.917;C|0.083	0.083	strong	.	NUP98	149	.	NM_016320	exon23	c.C3424G	p.Q1142E	TCAGCTGTTCTCC	.	PASS	Atlas-SNP
HDGFL1	154150	hgsc.bcm.edu	37	6	22570189	22570189	+	Silent	SNP	T	T	C	rs6922960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	29	63	0	0.47541	0	T|0.751;C|0.249	0.249	strong	.	HDGFL1	33	.	NM_138574	exon1	c.T385C	p.L129L	GACGAATTGGGGA	.	PASS	Atlas-SNP
INPP5B	3633	hgsc.bcm.edu	37	1	38348506	38348506	+	Silent	SNP	G	G	A	rs41307896	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	140	310	0	0.580913	0	G|0.897;A|0.103	0.103	strong	.	INPP5B	76	.	NM_005540	exon14	c.C1404T	p.D468D	TTGAAAGTCCTTC	.	PASS	Atlas-SNP
ASS1	445	hgsc.bcm.edu	37	9	133364757	133364757	+	Silent	SNP	T	T	C	rs1057484	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	35	54	0	0.57377	0	T|0.900;C|0.100	0.100	strong	.	ASS1	37	.	NM_054012	exon12	c.T876C	p.H292H	TTACCATGCTCAT	.	PASS	Atlas-SNP
ZNF224	7767	hgsc.bcm.edu	37	19	44610843	44610843	+	Missense_Mutation	SNP	C	C	T	rs72480796	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	89	146	0	0.622378	0	C|0.908;T|0.092	0.092	strong	.	ZNF224	70	.	NM_013398	exon6	c.C530T	p.T177M	CTCATACGTGTGA	.	PASS	Atlas-SNP
TOPBP1	11073	hgsc.bcm.edu	37	3	133341988	133341988	+	Missense_Mutation	SNP	T	T	C	rs10935070	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	34	121	0	0.390805	0	T|0.819;C|0.181	0.181	strong	.	TOPBP1	218	.	NM_007027	exon19	c.A3125G	p.N1042S	TTATTATTGGTGG	.	PASS	Atlas-SNP
PARP10	84875	hgsc.bcm.edu	37	8	145060112	145060112	+	Silent	SNP	G	G	A	rs11136345	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	53	131	0	0.445378	0	G|0.551;A|0.449	0.449	strong	.	PARP10	57	.	NM_032789	exon3	c.C213T	p.H71H	TAGTTCGTGATCT	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36841914	36841914	+	Missense_Mutation	SNP	G	G	A	rs3746471	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	30	58	0	0.5	0	G|0.644;A|0.356	0.356	strong	.	KIAA1755	145	.	NM_001029864	exon14	c.C3133T	p.R1045W	GCATCCGGATCTC	.	PASS	Atlas-SNP
DPYD	1806	hgsc.bcm.edu	37	1	98165091	98165091	+	Missense_Mutation	SNP	T	T	C	rs2297595	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	85	181	0	0.555556	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
GPNMB	10457	hgsc.bcm.edu	37	7	23313745	23313745	+	Silent	SNP	C	C	T	rs78340800	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	55	106	0	0.45082	0	C|0.995;T|0.005	0.005	strong	.	GPNMB	88	.	NM_001005340	exon11	c.C1621T	p.L541L	AAAGGCCTGAGTG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32552048	32552048	+	Missense_Mutation	SNP	C	C	T	rs56158521	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	21	74	0	0.176471	0	C|0.833;T|0.167	0.167	strong	.	HLA-DRB1	41	.	NM_002124	exon2	c.G208A	p.D70N	CGCTGTCGAAGCG	.	PASS	Atlas-SNP
CYP3A5	1577	hgsc.bcm.edu	37	7	99261643	99261643	+	Nonsense_Mutation	SNP	A	A	T	rs201260783	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	78	141	0	0.46988	0	.	.	weak	.	CYP3A5	46	.	NM_000777	exon8	c.T746A	p.L249X	TTACTTAAAAAAT	.	PASS	Atlas-SNP
SUV39H2	79723	hgsc.bcm.edu	37	10	14939485	14939485	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	23	64	0	0.38983	0	.	.	none	SUV39H2,colon,carcinoma,0,1	SUV39H2	72	1	NM_001193424	exon3	c.G818A	p.R273K	TTAAAAGAATGAG	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859983	144859983	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	7	223	1	0.0278884	0.00448431	.	.	none	PDE4DIP,caecum,carcinoma,+1,1	PDE4DIP	817	1	NM_014644	exon38	c.C6101T	p.A2034V	TGACAGGCATCCA	.	scavenged	Atlas-SNP
UNC79	57578	hgsc.bcm.edu	37	14	94088369	94088369	+	Missense_Mutation	SNP	T	T	C	rs28670114	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	57	109	0	0.513514	0	T|0.833;C|0.167	0.167	strong	.	UNC79	366	.	NM_020818	exon30	c.T4259C	p.V1420A	CGCCGGTAAAGCC	.	PASS	Atlas-SNP
C2orf16	84226	hgsc.bcm.edu	37	2	27802805	27802805	+	Silent	SNP	A	A	G	rs3811644	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	73	167	0	0.426901	0	A|0.811;G|0.189	0.189	strong	.	C2orf16	357	.	NM_032266	exon1	c.A3366G	p.L1122L	CTGCCTACAGTGT	.	PASS	Atlas-SNP
LAD1	3898	hgsc.bcm.edu	37	1	201355653	201355653	+	Missense_Mutation	SNP	G	G	T	rs11805972	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	128	144	0	0.592593	0	G|0.909;T|0.091	0.091	strong	.	LAD1	42	.	NM_005558	exon3	c.C836A	p.P279Q	GGGGCCGGCTTAG	.	PASS	Atlas-SNP
PARP1	142	hgsc.bcm.edu	37	1	226589958	226589958	+	Silent	SNP	G	G	A	rs1805404	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	37	72	0	0.506849	0	G|0.811;A|0.189	0.189	strong	PARP1,colon,carcinoma,-1,1	PARP1	100	1	NM_001618	exon2	c.C243T	p.D81D	CTGCTGGTCATCC	.	PASS	Atlas-SNP
ROM1	6094	hgsc.bcm.edu	37	11	62381106	62381106	+	Missense_Mutation	SNP	G	G	C	rs1799959	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	32	53	0	0.969697	0	G|0.071;C|0.929	0.929	strong	.	ROM1	32	.	NM_000327	exon1	c.G353C	p.G118A	TCGTCGGCCTCGG	.	PASS	Atlas-SNP
POLN	353497	hgsc.bcm.edu	37	4	2195024	2195024	+	Missense_Mutation	SNP	T	T	G	rs10018786	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	77	216	0	0.452941	0	T|0.710;G|0.290	0.290	strong	.	POLN	82	.	NM_181808	exon5	c.A928C	p.M310L	ATTTCATTGTTTG	.	PASS	Atlas-SNP
PDE5A	8654	hgsc.bcm.edu	37	4	120474859	120474859	+	Silent	SNP	A	A	G	rs11947234	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	179	210	0	0.994444	0	A|0.732;G|0.268	0.268	strong	.	PDE5A	83	.	NM_001083	exon8	c.T1242C	p.Y414Y	TTTGACATACTGA	.	PASS	Atlas-SNP
CNGB1	1258	hgsc.bcm.edu	37	16	57950057	57950057	+	Silent	SNP	G	G	A	rs376270	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	77	161	0	0.458333	0	A|0.342;C|0.004;G|0.647;N|0.000;T|0.007	0.342	strong	.	CNGB1	105	.	NM_001297	exon22	c.C2193T	p.N731N	CAGGTAGTTATTT	.	PASS	Atlas-SNP
GP2	2813	hgsc.bcm.edu	37	16	20335325	20335325	+	Silent	SNP	G	G	A	rs12930599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	83	129	0	0.479769	0	G|0.865;A|0.135	0.135	strong	.	GP2	122	.	NM_001007240	exon3	c.C348T	p.D116D	GGGAGCGTCTGTC	.	PASS	Atlas-SNP
PCDHB6	56130	hgsc.bcm.edu	37	5	140530529	140530529	+	Missense_Mutation	SNP	G	G	A	rs3776096	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	72	94	0	0.553846	0	G|0.783;A|0.217	0.217	strong	.	PCDHB6	161	.	NM_018939	exon1	c.G691A	p.V231I	ATCCAGGTTTTGG	.	PASS	Atlas-SNP
SLC25A47	283600	hgsc.bcm.edu	37	14	100795139	100795139	+	Missense_Mutation	SNP	G	G	T	rs35007880	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	123	139	0	1	0	G|0.667;T|0.333	0.333	strong	SLC25A47,NS,carcinoma,0,1	SLC25A47	36	1	NM_207117	exon5	c.G404T	p.R135L	AGCGGCGGCTTTC	.	PASS	Atlas-SNP
HERPUD1	9709	hgsc.bcm.edu	37	16	56974077	56974077	+	Silent	SNP	T	T	C	rs147630132	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	326	164	292	0	0.503067	0	T|0.985;C|0.015	0.015	strong	.	HERPUD1	28	.	NM_014685	exon6	c.T825C	p.S275S	ATTTTCTGTTTTT	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88494976	88494976	+	Missense_Mutation	SNP	A	A	C	rs11640794	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	32	81	0	0.477612	0	A|0.169;C|0.831	0.831	strong	.	ZNF469	121	.	NM_001127464	exon1	c.A1098C	p.R366S	CCCGAGACCCTTC	.	PASS	Atlas-SNP
OR8D1	283159	hgsc.bcm.edu	37	11	124180282	124180282	+	Missense_Mutation	SNP	A	A	C	rs7107539	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	25	79	0	0.396825	0	A|0.693;C|0.307	0.307	strong	.	OR8D1	53	.	NM_001002917	exon1	c.T381G	p.C127W	TGGGCTACAGATG	.	PASS	Atlas-SNP
C1QTNF9B	387911	hgsc.bcm.edu	37	13	24471048	24471048	+	Silent	SNP	C	C	T	rs75960895		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	125	231	0	0.560538	0	.	.	weak	.	C1QTNF9B	27	.	NM_001007537	exon1	c.G78A	p.G26G	AGGGTGCCCTTGC	.	PASS	Atlas-SNP
OR10Q1	219960	hgsc.bcm.edu	37	11	57995777	57995777	+	Missense_Mutation	SNP	G	G	A	rs11229301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	84	170	0	0.531646	0	G|0.865;A|0.135	0.135	strong	OR10Q1,NS,carcinoma,+1,2	OR10Q1	79	2	NM_001004471	exon1	c.C571T	p.R191C	CCAGGCGCAGGAC	.	PASS	Atlas-SNP
CTAGE1	64693	hgsc.bcm.edu	37	18	19996805	19996805	+	Missense_Mutation	SNP	T	T	C	rs12961009	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	76	183	0	0.5	0	T|0.976;C|0.024	0.024	strong	.	CTAGE1	146	.	NM_172241	exon1	c.A970G	p.I324V	TTTTAATATGCTC	.	PASS	Atlas-SNP
CSHL1	1444	hgsc.bcm.edu	37	17	61987570	61987570	+	Missense_Mutation	SNP	G	G	T	rs2727307	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	404	400	488	0	0.990099	0	G|0.670;T|0.330	0.330	strong	CSHL1_ENST00000561003,bladder,carcinoma,-2,4	CSHL1	42	4	NM_022579	exon4	c.C423A	p.D141E	GTGATAGTCATCG	.	PASS	Atlas-SNP
FZD3	7976	hgsc.bcm.edu	37	8	28384712	28384712	+	Silent	SNP	A	A	G	rs2241802	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	290	147	286	0	0.506897	0	A|0.459;G|0.541	0.541	strong	.	FZD3	65	.	NM_017412	exon5	c.A435G	p.L145L	GAATTTAGCTGGA	.	PASS	Atlas-SNP
ZNF572	137209	hgsc.bcm.edu	37	8	125989698	125989698	+	Silent	SNP	C	C	T	rs16900167	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	41	64	0	0.577465	0	C|0.867;T|0.133	0.133	strong	.	ZNF572	82	.	NM_152412	exon3	c.C1188T	p.S396S	CCTTAGCTCCCAT	.	PASS	Atlas-SNP
CNDP1	84735	hgsc.bcm.edu	37	18	72234635	72234635	+	Silent	SNP	C	C	T	rs12960862	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	169	168	0	1	0	C|0.481;T|0.519	0.519	strong	.	CNDP1	98	.	NM_032649	exon6	c.C723T	p.Y241Y	CACTTACGGAACC	.	PASS	Atlas-SNP
TCP10L2	401285	hgsc.bcm.edu	37	6	167592571	167592571	+	Missense_Mutation	SNP	G	G	A	rs28690444	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	16	98	0	0.118519	0	G|0.965;A|0.035	0.035	strong	.	TCP10L2	41	.	NM_001145121	exon6	c.G730A	p.A244T	CAGGCCGCCACGC	.	PASS	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	37	20	57768399	57768399	+	Silent	SNP	T	T	C	rs442091	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	59	90	0	0.517544	0	T|0.666;C|0.334	0.334	strong	ZNF831,NS,carcinoma,+2,1	ZNF831	287	1	NM_178457	exon1	c.T2325C	p.A775A	AGAGGCTCCCAGG	.	PASS	Atlas-SNP
SLC22A24	283238	hgsc.bcm.edu	37	11	62850775	62850775	+	Nonsense_Mutation	SNP	G	G	A	rs77002186	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	46	113	0	0.418182	0	G|0.958;A|0.042	0.042	strong	.	SLC22A24	31	.	NM_001136506	exon7	c.C1225T	p.Q409X	ATATCTGGCTTAT	.	PASS	Atlas-SNP
OTOF	9381	hgsc.bcm.edu	37	2	26696374	26696374	+	Missense_Mutation	SNP	C	C	T	rs56054534	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	42	79	0	0.461538	0	C|0.991;T|0.009	0.009	strong	.	OTOF	524	.	NM_194248	exon28	c.G3470A	p.R1157Q	TCCACCCGTGGCC	.	PASS	Atlas-SNP
FERMT1	55612	hgsc.bcm.edu	37	20	6065731	6065731	+	Silent	SNP	T	T	C	rs2232073	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	255	120	232	0	0.470588	0	T|0.572;C|0.428	0.428	strong	.	FERMT1	106	.	NM_017671	exon12	c.A1575G	p.K525K	GTGTCTTTTTGCA	.	PASS	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	37	1	24417415	24417415	+	Missense_Mutation	SNP	T	T	C	rs6700245	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	74	156	0	0.513889	0	T|0.841;C|0.159	0.159	strong	.	MYOM3	131	.	NM_152372	exon12	c.A1304G	p.Q435R	AGGCCTTGGATTG	.	PASS	Atlas-SNP
SNED1	25992	hgsc.bcm.edu	37	2	241991198	241991198	+	Silent	SNP	C	C	T	rs138612536	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	57	147	0	0.513514	0	C|0.999;T|0.001	0.001	strong	.	SNED1	76	.	NM_001080437	exon13	c.C1773T	p.N591N	CCGGAACGGGGGC	.	PASS	Atlas-SNP
ACSM1	116285	hgsc.bcm.edu	37	16	20636814	20636814	+	Silent	SNP	G	G	A	rs2301672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	43	95	0	0.477778	0	G|0.849;A|0.151	0.151	strong	.	ACSM1	118	.	NM_052956	exon11	c.C1458T	p.S486S	CAAAGCGCTTTCA	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147477551	147477551	+	Missense_Mutation	SNP	C	C	T	rs34482796	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	78	71	0	0.987342	0	C|0.530;T|0.470	0.470	strong	SPINK5_ENST00000359874,colon,carcinoma,+1,2	SPINK5	245	2	NM_001127699	exon11	c.C1004T	p.A335V	GTCAAGCCTACTT	.	PASS	Atlas-SNP
DZIP1L	199221	hgsc.bcm.edu	37	3	137787192	137787192	+	Missense_Mutation	SNP	T	T	C	rs446644	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	170	156	0	1	0	T|0.303;C|0.697	0.697	strong	.	DZIP1L	88	.	NM_173543	exon13	c.A1633G	p.T545A	CCAGTGTGCTCTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508010	195508010	+	Missense_Mutation	SNP	C	C	A	rs61388923	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	289	75	84	0	0.259516	0	.	.	weak	MUC4_ENST00000463781,colon,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.G10441T	p.A3481S	TAGATGCTGAGGA	.	scavenged	Atlas-SNP
NID1	4811	hgsc.bcm.edu	37	1	236144951	236144951	+	Silent	SNP	A	A	G	rs3738525	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	44	88	0	0.517647	0	A|0.729;G|0.271	0.271	strong	.	NID1	196	.	NM_002508	exon16	c.T3187C	p.L1063L	TCACCAAGTCAGT	.	PASS	Atlas-SNP
KIAA0556	23247	hgsc.bcm.edu	37	16	27720201	27720201	+	Missense_Mutation	SNP	C	C	T	rs12930355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	55	94	0	0.491071	0	C|0.898;T|0.102	0.102	strong	KIAA0556_ENST00000261588,caecum,carcinoma,-1,3	KIAA0556	348	3	NM_015202	exon13	c.C1565T	p.T522M	CAGCCACGCCTGG	.	PASS	Atlas-SNP
SOX30	11063	hgsc.bcm.edu	37	5	157065306	157065306	+	Silent	SNP	G	G	A	rs35793864	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	172	237	1	0.671875	0.00421941	G|0.902;A|0.098	0.098	strong	.	SOX30	67	.	NM_178424	exon4	c.C1812T	p.F604F	TGTCCCGAACAGT	.	PASS	Atlas-SNP
ZNF516	9658	hgsc.bcm.edu	37	18	74090864	74090864	+	Missense_Mutation	SNP	A	A	G	rs140499406	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	26	104	0	0.337662	0	A|0.994;G|0.006	0.006	strong	.	ZNF516	102	.	NM_014643	exon5	c.T3205C	p.F1069L	TCGCAAAGTCCTT	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40383905	40383905	+	Silent	SNP	G	G	A	rs75088257	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	476	86	405	1	0.180672	0.00246914	G|0.667;A|0.333	0.333	strong	FCGBP,NS,carcinoma,0,6	FCGBP	416	6	NM_003890	exon21	c.C9705T	p.C3235C	AGGCCCGCAGCGA	.	scavenged	Atlas-SNP
PRRC1	133619	hgsc.bcm.edu	37	5	126887569	126887569	+	Silent	SNP	G	G	A	rs7522	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	49	107	0	0.453704	0	G|0.650;A|0.350	0.350	strong	.	PRRC1	22	.	NM_130809	exon9	c.G1299A	p.A433A	GATAGCGGGCATG	.	PASS	Atlas-SNP
ARHGAP32	9743	hgsc.bcm.edu	37	11	128842873	128842873	+	Silent	SNP	T	T	C	rs581258	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	68	154	0	0.417178	0	T|0.809;G|0.002	.	strong	.	ARHGAP32	307	.	NM_001142685	exon21	c.A3486G	p.E1162E	GGCCTTTTCTGGG	.	PASS	Atlas-SNP
BTN3A2	11118	hgsc.bcm.edu	37	6	26370659	26370659	+	Silent	SNP	C	C	T	rs9393711	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	128	207	0	0.472325	0	C|0.923;T|0.077	0.077	strong	.	BTN3A2	44	.	NM_001197246	exon3	c.C543T	p.N181N	GAGCAACGCCAAG	.	PASS	Atlas-SNP
FAM205A	259308	hgsc.bcm.edu	37	9	34726821	34726821	+	Missense_Mutation	SNP	A	A	C	rs117956208	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	59	110	0	0.460938	0	A|0.987;C|0.013	0.013	strong	.	FAM205A	45	.	NM_001141917	exon4	c.T416G	p.L139R	ATCTCTAGGCAAG	.	PASS	Atlas-SNP
FAM179A	165186	hgsc.bcm.edu	37	2	29240686	29240686	+	Silent	SNP	A	A	C	rs34261417	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244	122	267	0	0.5	0	A|0.776;C|0.224	0.224	strong	.	FAM179A	106	.	NM_199280	exon10	c.A1224C	p.T408T	CGGGACACTGTCT	.	PASS	Atlas-SNP
CEACAM3	1084	hgsc.bcm.edu	37	19	42312933	42312933	+	Silent	SNP	G	G	A	rs3752172	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	280	142	274	1	0.507143	0.00364964	G|0.840;A|0.160	0.160	strong	.	CEACAM3	37	.	NM_001815	exon3	c.G507A	p.A169A	GGCCGCGCTGGTG	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	37	MT	13759	13759	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	9	8	5	0	0.888889	0	.	.	none	.	.	.	.	ENST00000361567	exon1	c.G1423A	p.A475T	TCCCCCGCATCCC	.	PASS	Atlas-SNP
APH1B	83464	hgsc.bcm.edu	37	15	63569902	63569902	+	Missense_Mutation	SNP	C	C	T	rs117618017	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	55	84	0	0.56701	0	C|0.915;T|0.085	0.085	strong	APH1B,NS,lymphoid_neoplasm,0,3	APH1B	27	3	NM_001145646	exon1	c.C80T	p.T27I	TCGCCACCGAGCC	.	PASS	Atlas-SNP
KIAA1199	57214	hgsc.bcm.edu	37	15	81172104	81172104	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	2	163	1	0.015625	0.00613497	.	.	none	KIAA1199,caecum,carcinoma,-1,1	KIAA1199	118	1	NM_018689	exon4	c.C289T	p.R97W	CGAACCCGGCACA	.	scavenged	Atlas-SNP
IPO11	51194	hgsc.bcm.edu	37	5	61772535	61772535	+	Silent	SNP	G	G	T	rs26635	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	320	320	355	0	1	0	G|0.567;T|0.433	0.433	strong	IPO11,NS,carcinoma,0,1	IPO11	76	1	NM_001134779	exon9	c.G903T	p.V301V	TAATGTGTGTAGA	.	PASS	Atlas-SNP
C7	730	hgsc.bcm.edu	37	5	40964885	40964885	+	Missense_Mutation	SNP	A	A	T	rs60714178	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	139	221	1	0.596566	0.00452489	A|0.902;T|0.098	0.098	strong	.	C7	136	.	NM_000587	exon14	c.A1792T	p.T598S	GTGTACACTTGCA	.	PASS	Atlas-SNP
ADNP	23394	hgsc.bcm.edu	37	20	49509184	49509184	+	Silent	SNP	G	G	A	rs17790938	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	74	155	0	0.465409	0	G|0.899;A|0.100	0.100	strong	.	ADNP	106	.	NM_015339	exon5	c.C2067T	p.G689G	TCCAACGCCCCTG	.	PASS	Atlas-SNP
AQP1	358	hgsc.bcm.edu	37	7	30961790	30961790	+	Missense_Mutation	SNP	G	G	A	rs28362731	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	62	101	0	0.596154	0	G|0.972;A|0.028	0.028	strong	.	AQP1	38	.	NM_198098	exon2	c.G494A	p.G165D	ACCTTGGTGGCTC	.	PASS	Atlas-SNP
ZNF75A	7627	hgsc.bcm.edu	37	16	3367229	3367229	+	Missense_Mutation	SNP	T	T	C	rs17611866	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	58	106	0	0.552381	0	T|0.835;C|0.165	0.165	strong	.	ZNF75A	34	.	NM_153028	exon6	c.T251C	p.V84A	AGCCTGTGTCTCT	.	PASS	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	37	17	72346918	72346918	+	Silent	SNP	C	C	T	rs73995260	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	89	156	0	0.552795	0	C|0.906;T|0.094	0.094	strong	.	KIF19	102	.	NM_153209	exon12	c.C1461T	p.D487D	TAAGGACGACAGC	.	PASS	Atlas-SNP
RGS22	26166	hgsc.bcm.edu	37	8	100977644	100977644	+	Silent	SNP	T	T	C	rs147697097	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	14	36	0	0.311111	0	T|0.987;C|0.013	0.013	strong	.	RGS22	319	.	NM_015668	exon24	c.A3534G	p.Q1178Q	TGCATATTGTTTG	.	PASS	Atlas-SNP
LIPI	149998	hgsc.bcm.edu	37	21	15481365	15481365	+	Missense_Mutation	SNP	G	G	T	rs7278737	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	36	79	0	0.507042	0	G|0.501;T|0.499	0.499	strong	LIPI,caecum,carcinoma,-2,1	LIPI	95	1	NM_198996	exon10	c.C1395A	p.D465E	CTCTCTGTCTTTA	.	PASS	Atlas-SNP
OR10H5	284433	hgsc.bcm.edu	37	19	15905002	15905002	+	Silent	SNP	T	T	C	rs56548474		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	252	280	0	1	0	.	.	weak	.	OR10H5	49	.	NM_001004466	exon1	c.T144C	p.T48T	GGCCACTGTCTGG	.	PASS	Atlas-SNP
DHRS7C	201140	hgsc.bcm.edu	37	17	9676134	9676134	+	Missense_Mutation	SNP	G	G	A	rs2280490	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	18	35	0	0.382979	0	G|0.907;A|0.093	0.093	strong	.	DHRS7C	34	.	NM_001220493	exon5	c.C680T	p.S227L	TGGTACGACCGGA	.	PASS	Atlas-SNP
OR1A2	26189	hgsc.bcm.edu	37	17	3101691	3101691	+	Missense_Mutation	SNP	G	G	T	rs12150427	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	61	114	0	0.426573	0	G|0.697;N|0.000	.	strong	OR1A2,NS,carcinoma,0,1	OR1A2	52	1	NM_012352	exon1	c.G879T	p.W293C	AAATTGGGATATG	.	PASS	Atlas-SNP
ALG1	56052	hgsc.bcm.edu	37	16	5128817	5128817	+	Missense_Mutation	SNP	G	G	A	rs17849848	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	459	247	549	1	0.538126	0.00182149	G|0.925;A|0.075	0.075	strong	ALG1,NS,haematopoietic_neoplasm,-1,1	ALG1	35	1	NM_019109	exon7	c.G800A	p.S267N	CTGGGAGCGGGCT	.	PASS	Atlas-SNP
ZSCAN30	100101467	hgsc.bcm.edu	37	18	32844056	32844056	+	Silent	SNP	G	G	T	rs75902053	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	55	99	0	0.423077	0	G|0.958;T|0.042	0.042	strong	.	ZSCAN30	34	.	NM_001166012	exon3	c.C261A	p.I87I	CTCCAGGATCTGC	.	PASS	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	37	21	46931109	46931109	+	Missense_Mutation	SNP	G	G	A	rs12483377	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	46	67	0	0.554217	0	G|0.953;A|0.047	0.047	strong	COL18A1,lymph_node,lymphoid_neoplasm,0,1	COL18A1	129	1	NM_030582	exon41	c.G4309A	p.D1437N	TCCTTTGACGGCA	.	PASS	Atlas-SNP
OBP2A	29991	hgsc.bcm.edu	37	9	138439806	138439806	+	Missense_Mutation	SNP	C	C	T	rs72766543	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	39	77	0	0.458824	0	C|0.813;T|0.187	0.187	strong	OBP2A,NS,carcinoma,-1,1	OBP2A	21	1	NM_014582	exon4	c.C367T	p.R123C	GGCCTGCGCTACA	.	PASS	Atlas-SNP
KDM6B	23135	hgsc.bcm.edu	37	17	7750232	7750232	+	Silent	SNP	T	T	C	rs11078709	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	34	51	0	0.515152	0	T|0.682;C|0.318	0.318	strong	.	KDM6B	95	.	NM_001080424	exon9	c.T807C	p.A269A	CCTGGCTACCAGC	.	PASS	Atlas-SNP
CXXC11	285093	hgsc.bcm.edu	37	2	242814535	242814535	+	Silent	SNP	C	C	G	rs146481716	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	52	89	0	0.52	0	C|0.997;G|0.003	0.003	strong	.	.	.	.	NM_173821	exon2	c.C828G	p.L276L	CCTCCTCGGCAGC	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10467571	10467571	+	Missense_Mutation	SNP	C	C	T	rs200175359		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	31	203	7	0.117424	0.0344828	.	.	weak	RP1L1,NS,carcinoma,-1,1	RP1L1	453	1	NM_178857	exon4	c.G4037A	p.G1346E	CCTTCTCCTTCTG	.	scavenged	Atlas-SNP
UQCRC2	7385	hgsc.bcm.edu	37	16	21994411	21994411	+	Silent	SNP	G	G	A	rs7282	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	35	63	0	0.486111	0	A|0.089;C|0.000;G|0.911	0.089	strong	UQCRC2,NS,carcinoma,+1,1	UQCRC2	46	1	NM_003366	exon14	c.G1281A	p.A427A	AAAGGCGGCAAAG	.	PASS	Atlas-SNP
IL12RB1	3594	hgsc.bcm.edu	37	19	18186618	18186618	+	Missense_Mutation	SNP	T	T	C	rs11575934	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	50	100	0	0.471698	0	T|0.736;C|0.264	0.264	strong	.	IL12RB1	92	.	NM_153701	exon7	c.A641G	p.Q214R	CCCAGCTGCCGTC	.	PASS	Atlas-SNP
UROC1	131669	hgsc.bcm.edu	37	3	126202257	126202257	+	Silent	SNP	G	G	A	rs1687477	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	93	75	0	1	0	G|0.576;A|0.424	0.424	strong	UROC1_ENST00000383579,NS,carcinoma,0,4	UROC1	150	4	NM_001165974	exon20	c.C2025T	p.A675A	CCCCTCGGCCTCC	.	PASS	Atlas-SNP
ADCYAP1	116	hgsc.bcm.edu	37	18	909561	909561	+	Missense_Mutation	SNP	A	A	G	rs2231187	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	72	123	0	0.734694	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
TMEM106C	79022	hgsc.bcm.edu	37	12	48359984	48359984	+	Missense_Mutation	SNP	C	C	T	rs2286025	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	138	161	1	0.978723	0.00621118	C|0.874;T|0.126	0.126	strong	.	TMEM106C	24	.	NM_024056	exon5	c.C524T	p.S175F	ACGTCTCCCTTAT	.	PASS	Atlas-SNP
PRAME	23532	hgsc.bcm.edu	37	22	22890792	22890792	+	Silent	SNP	T	T	C	rs17497547	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	15	33	0	0.483871	0	T|0.894;C|0.106	0.106	strong	.	PRAME	78	.	NM_206954	exon6	c.A1227G	p.T409T	TAAGGTTGTAAGC	.	PASS	Atlas-SNP
C5orf22	55322	hgsc.bcm.edu	37	5	31538692	31538692	+	Missense_Mutation	SNP	A	A	C	rs17410000	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	64	139	0	0.447552	0	A|0.767;C|0.233	0.233	strong	.	C5orf22	48	.	NM_018356	exon4	c.A703C	p.T235P	GCCAGCACTGGGG	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62193019	62193019	+	Silent	SNP	C	C	T	rs11551684	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	47	102	0	0.479592	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
SDPR	8436	hgsc.bcm.edu	37	2	192701393	192701393	+	Silent	SNP	A	A	G	rs10167187	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	129	145	1	1	0.00689655	A|0.407;G|0.593	0.593	strong	.	SDPR	67	.	NM_004657	exon2	c.T534C	p.G178G	CACGGCACCGGAA	.	PASS	Atlas-SNP
C4orf36	132989	hgsc.bcm.edu	37	4	87809025	87809025	+	Missense_Mutation	SNP	T	T	C	rs28664715	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	68	112	0	0.519084	0	T|0.938;C|0.062	0.062	strong	.	C4orf36	10	.	NM_144645	exon4	c.A242G	p.Y81C	ACTTCATACTCCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	43	104	0	0.344	0	C|0.825;T|0.175	0.175	strong	.	NDUFAF1	39	.	NM_016013	exon2	c.G26A	p.R9H	GTACCACGCAGCA	.	PASS	Atlas-SNP
CERS4	79603	hgsc.bcm.edu	37	19	8326672	8326672	+	Missense_Mutation	SNP	G	G	A	rs141592194	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	110	304	0	0.408922	0	G|0.999;A|0.001	0.001	strong	.	.	.	.	NM_024552	exon11	c.G949A	p.V317M	CTGCACGTGTTCT	.	PASS	Atlas-SNP
SLC5A12	159963	hgsc.bcm.edu	37	11	26694979	26694979	+	Silent	SNP	A	A	G	rs4369354	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	76	82	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
FANCM	57697	hgsc.bcm.edu	37	14	45606387	45606387	+	Missense_Mutation	SNP	A	A	G	rs45547534	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	31	46	0	0.455882	0	A|0.990;G|0.010	0.010	strong	.	FANCM	225	.	NM_020937	exon2	c.A624G	p.I208M	TGAAATAAAGTGT	.	PASS	Atlas-SNP
OR4K15	81127	hgsc.bcm.edu	37	14	20444490	20444490	+	Silent	SNP	C	C	T	rs11158071	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	267	290	2	0.992565	0.00689655	C|0.443;T|0.557	0.557	strong	.	OR4K15	82	.	NM_001005486	exon1	c.C813T	p.V271V	TGTGGTCACTTTA	.	PASS	Atlas-SNP
SAGE1	55511	hgsc.bcm.edu	37	X	134994005	134994005	+	Missense_Mutation	SNP	T	T	C	rs4829799	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	77	200	0	1	0	0|0.015;C|0.189	0.189	strong	.	SAGE1	160	.	NM_018666	exon18	c.T2414C	p.L805S	TGTCTTTGGTGGA	.	PASS	Atlas-SNP
GALNT11	63917	hgsc.bcm.edu	37	7	151791435	151791435	+	Silent	SNP	C	C	T	rs138436495	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	72	93	0	0.590164	0	C|0.998;T|0.002	0.002	strong	GALNT11,NS,carcinoma,+1,1	GALNT11	59	1	NM_022087	exon2	c.C123T	p.P41P	TGTGCCCGTCAAG	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17273443	17273443	+	Missense_Mutation	SNP	C	C	T	rs74657070	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	55	129	0	0.611111	0	C|0.974;T|0.026	0.026	strong	CROCC,NS,carcinoma,-1,1	CROCC	185	1	NM_014675	exon17	c.C2471T	p.T824M	TCCCCACGCTGCG	.	PASS	Atlas-SNP
TOR1AIP1	26092	hgsc.bcm.edu	37	1	179852074	179852074	+	Missense_Mutation	SNP	T	T	C	rs1281378	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	132	101	0	0.992481	0	T|0.410;C|0.590	0.590	strong	.	TOR1AIP1	58	.	NM_001267578	exon1	c.T437C	p.M146T	CTGTTATGACCAG	.	PASS	Atlas-SNP
SENP7	57337	hgsc.bcm.edu	37	3	101066717	101066717	+	Missense_Mutation	SNP	T	T	A	rs2433031	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	110	128	0	1	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
SLC28A2	9153	hgsc.bcm.edu	37	15	45545478	45545478	+	Missense_Mutation	SNP	C	C	T	rs11854484	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	68	158	0	0.444444	0	C|0.580;N|0.000	.	strong	.	SLC28A2	64	.	NM_004212	exon2	c.C65T	p.P22L	TGAACCCGGGGCT	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124335521	124335521	+	Silent	SNP	C	C	T	rs201453347	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	6	124	0	0.0416667	0	C|1.000;G|0.000	.	strong	.	DNAH10	888	.	NM_207437	exon34	c.C5835T	p.P1945P	GCTGCCCGAGTCG	.	PASS	Atlas-SNP
ALS2	57679	hgsc.bcm.edu	37	2	202598113	202598113	+	Silent	SNP	C	C	T	rs2276615	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	92	111	0	0.989247	0	C|0.552;T|0.448	0.448	strong	ALS2,NS,carcinoma,0,2	ALS2	172	2	NM_020919	exon13	c.G2466A	p.V822V	GTCATTCACTTCT	.	PASS	Atlas-SNP
VCL	7414	hgsc.bcm.edu	37	10	75865065	75865065	+	Silent	SNP	G	G	A	rs767809	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	94	68	0	0.989474	0	G|0.604;A|0.396	0.396	strong	.	VCL	77	.	NM_003373	exon16	c.G2388A	p.P796P	CTCCCCGATGGTG	.	PASS	Atlas-SNP
CSF1	1435	hgsc.bcm.edu	37	1	110466466	110466466	+	Missense_Mutation	SNP	T	T	C	rs1058885	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	105	123	0	1	0	T|0.587;C|0.413	0.413	strong	.	CSF1	40	.	NM_000757	exon6	c.T1223C	p.L408P	CATCACTGCGCCC	.	PASS	Atlas-SNP
ZDHHC19	131540	hgsc.bcm.edu	37	3	195936382	195936382	+	Silent	SNP	G	G	A	rs11719281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	105	110	0	0.990566	0	G|0.851;A|0.149	0.149	strong	.	ZDHHC19	25	.	NM_001039617	exon3	c.C273T	p.S91S	CTCAGCGGAGCCT	.	PASS	Atlas-SNP
MANSC1	54682	hgsc.bcm.edu	37	12	12483713	12483713	+	Silent	SNP	A	A	G	rs4763282	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	93	145	0	0.505435	0	A|0.380;G|0.620	0.620	strong	MANSC1,NS,carcinoma,0,1	MANSC1	38	1	NM_018050	exon4	c.T544C	p.L182L	TCTCCAAGTGATC	.	PASS	Atlas-SNP
ANKS1B	56899	hgsc.bcm.edu	37	12	100048924	100048924	+	Missense_Mutation	SNP	G	G	A	rs377459874		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250	114	224	0	0.456	0	.	.	weak	.	ANKS1B	180	.	NM_152788	exon9	c.C1193T	p.T398M	CCACACGTATTTT	.	PASS	Atlas-SNP
CSMD2	114784	hgsc.bcm.edu	37	1	34052137	34052137	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	36	146	0	0.391304	0	.	.	none	.	CSMD2	946	.	NM_052896	exon47	c.C7024T	p.L2342L	ACTGCAGGTAGGT	.	PASS	Atlas-SNP
MAP2K2	5605	hgsc.bcm.edu	37	19	4101062	4101062	+	Silent	SNP	G	G	T	rs11539507		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	96	220	0	0.422908	0	.	.	weak	MAP2K2_ENST00000262948,NS,carcinoma,0,2	MAP2K2	72	2	NM_030662	exon6	c.C660A	p.I220I	GGAGTCGATGAGC	.	PASS	Atlas-SNP
KDM6B	23135	hgsc.bcm.edu	37	17	7751050	7751050	+	Missense_Mutation	SNP	C	C	T	rs62059713	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	61	95	0	0.455224	0	C|0.848;T|0.152	0.152	strong	.	KDM6B	95	.	NM_001080424	exon11	c.C1444T	p.P482S	CCACCACCCCCTG	.	PASS	Atlas-SNP
SLC19A1	6573	hgsc.bcm.edu	37	21	46951556	46951556	+	Silent	SNP	A	A	G	rs12659	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	19	19	38	0	1	0	A|0.440;G|0.560	0.560	strong	.	SLC19A1	53	.	NM_001205206	exon3	c.T696C	p.P232P	TGGGCCAGGATTC	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152694184	152694184	+	Silent	SNP	T	T	C	rs6913579	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	58	135	0	0.47541	0	T|0.507;C|0.493	0.493	strong	.	SYNE1	3227	.	NM_033071	exon59	c.A9516G	p.E3172E	AGCAGATTCTTTT	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14801710	14801710	+	Missense_Mutation	SNP	C	C	A	rs35870000	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	167	238	0	0.639847	0	C|0.719;A|0.281	0.281	strong	.	FREM1	261	.	NM_144966	exon21	c.G3634T	p.A1212S	GGTTGGCTGGCTG	.	PASS	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	37	1	118583408	118583408	+	Silent	SNP	G	G	A	rs10923477	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	95	207	0	0.601266	0	G|0.677;A|0.323	0.323	strong	.	SPAG17	263	.	NM_206996	exon22	c.C3111T	p.Y1037Y	ATACAGGTAGTAA	.	PASS	Atlas-SNP
GRIN2B	2904	hgsc.bcm.edu	37	12	13715954	13715954	+	Silent	SNP	G	G	A	rs1805246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	41	80	0	0.488095	0	G|0.969;A|0.031	0.031	strong	.	GRIN2B	303	.	NM_000834	exon13	c.C4218T	p.F1406F	CTGCCTGAAGAAG	.	PASS	Atlas-SNP
C1orf112	55732	hgsc.bcm.edu	37	1	169822088	169822088	+	Missense_Mutation	SNP	G	G	C	rs41308405	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	81	149	0	0.382075	0	G|0.996;C|0.004	0.004	strong	.	C1orf112	74	.	NM_018186	exon24	c.G2522C	p.R841T	AAGAAAGGATGGA	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155158284	155158284	+	Nonsense_Mutation	SNP	A	A	C	rs146298768	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	52	102	0	0.509804	0	A|0.998;C|0.002	0.002	strong	.	DCHS2	594	.	NM_017639	exon25	c.T6155G	p.L2052X	AGAAGTAATACGG	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130832364	130832364	+	Missense_Mutation	SNP	G	G	A	rs185469611	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	409	362	250	0	0.885086	0	G|0.988;A|0.012	0.012	strong	.	POTEF	140	.	NM_001099771	exon17	c.C2681T	p.T894I	TGCTCGGTGAGGA	.	PASS	Atlas-SNP
LRRTM3	347731	hgsc.bcm.edu	37	10	68687942	68687942	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	21	71	0	0.375	0	.	.	none	.	LRRTM3	241	.	NM_178011	exon2	c.G1268C	p.G423A	TCGCGGGCAGCGT	.	PASS	Atlas-SNP
C5orf49	134121	hgsc.bcm.edu	37	5	7835555	7835555	+	Missense_Mutation	SNP	C	C	G	rs6883562	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	76	66	0	1	0	C|0.808;G|0.192	0.192	strong	.	C5orf49	27	.	NM_001089584	exon2	c.G204C	p.Q68H	CAACTTCTGATCA	.	PASS	Atlas-SNP
HAX1	10456	hgsc.bcm.edu	37	1	154245917	154245917	+	Silent	SNP	T	T	C	rs13796	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	77	116	0	0.5	0	T|0.915;C|0.085	0.085	strong	.	HAX1	25	.	NM_006118	exon2	c.T159C	p.S53S	CCATAGTCCTCAG	.	PASS	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70924736	70924736	+	Missense_Mutation	SNP	G	G	A	rs148146367	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	37	124	0	0.175355	0	G|0.999;A|0.001	0.001	weak	.	ADAM21	181	.	NM_003813	exon2	c.G520A	p.G174S	AGATGTGGCTTAA	.	PASS	Atlas-SNP
ATRN	8455	hgsc.bcm.edu	37	20	3624830	3624830	+	Silent	SNP	G	G	A	rs2246808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	177	191	0	1	0	G|0.577;A|0.423	0.423	strong	.	ATRN	118	.	NM_139321	exon28	c.G4080A	p.P1360P	GGAGCCGTGTTTT	.	PASS	Atlas-SNP
NCOR2	9612	hgsc.bcm.edu	37	12	124831388	124831388	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	24	44	0	0.521739	0	.	.	none	.	NCOR2	475	.	NM_006312	exon33	c.C4081T	p.R1361W	AGGACCGAGGGAT	.	PASS	Atlas-SNP
SOGA1	140710	hgsc.bcm.edu	37	20	35467713	35467713	+	Silent	SNP	G	G	A	rs1146250	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	43	96	0	0.651515	0	G|0.733;A|0.267	0.267	strong	.	SOGA1	136	.	NM_080627	exon2	c.C819T	p.Y273Y	CAGCCGGTACTGC	.	PASS	Atlas-SNP
KRT25	147183	hgsc.bcm.edu	37	17	38911212	38911212	+	Silent	SNP	G	G	A	rs12951078	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	158	179	0	1	0	G|0.543;A|0.457	0.457	strong	.	KRT25	63	.	NM_181534	exon1	c.C312T	p.N104N	GTCAGCGTTGGCC	.	PASS	Atlas-SNP
CASZ1	54897	hgsc.bcm.edu	37	1	10725469	10725469	+	Missense_Mutation	SNP	G	G	A	rs149479567	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	24	65	0	0.75	0	G|0.993;A|0.007	0.007	strong	.	CASZ1	150	.	NM_001079843	exon5	c.C176T	p.S59L	GGCTGCGATGGGC	.	PASS	Atlas-SNP
ATM	472	hgsc.bcm.edu	37	11	108124761	108124761	+	Missense_Mutation	SNP	T	T	C	rs4986761	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	35	63	0	0.522388	0	T|0.993;C|0.007	0.007	strong	ATM,NS,carcinoma,0,2	ATM	1657	2	NM_000051	exon13	c.T2119C	p.S707P	TACTCATCTGAGG	.	PASS	Atlas-SNP
PDE1C	5137	hgsc.bcm.edu	37	7	31848706	31848706	+	Silent	SNP	A	A	G	rs3213709	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	41	77	0	0.539474	0	A|0.792;G|0.208	0.208	strong	PDE1C_ENST00000396193,NS,carcinoma,-2,8	PDE1C	465	8	NM_001191058	exon17	c.T2010C	p.G670G	ATTTTTACCATCT	.	PASS	Atlas-SNP
LIMCH1	22998	hgsc.bcm.edu	37	4	41691601	41691601	+	Silent	SNP	T	T	C	rs1061597	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	102	220	0	0.470046	0	T|0.885;C|0.115	0.115	strong	.	LIMCH1	233	.	NM_014988	exon25	c.T3072C	p.A1024A	AGGAGCTGCAATG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	131	137	0	0.992424	0	G|0.702;A|0.298	0.298	strong	.	CR2	164	.	NM_001006658	exon10	c.G1916A	p.S639N	AGGGCAGTAGTCA	.	PASS	Atlas-SNP
KCNA1	3736	hgsc.bcm.edu	37	12	5021228	5021228	+	Silent	SNP	T	T	C	rs1048500	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	109	117	0	1	0	T|0.498;C|0.502	0.502	strong	KCNA1,colon,carcinoma,0,1	KCNA1	112	1	NM_000217	exon2	c.T684C	p.C228C	GCTGTGTATCATC	.	PASS	Atlas-SNP
OSBPL7	114881	hgsc.bcm.edu	37	17	45890707	45890707	+	Silent	SNP	C	C	T	rs2301690	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	41	82	0	0.465909	0	C|0.759;T|0.241	0.241	strong	.	OSBPL7	65	.	NM_145798	exon16	c.G1662A	p.K554K	GAAGGGCTTGCAG	.	PASS	Atlas-SNP
GBP7	388646	hgsc.bcm.edu	37	1	89599084	89599084	+	Missense_Mutation	SNP	G	G	C	rs79037912	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	524	80	498	0	0.152672	0	.	.	weak	GBP7,extremity,malignant_melanoma,0,1	GBP7	57	1	NM_207398	exon10	c.C1519G	p.Q507E	GTTTTTGTCTTAG	.	PASS	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	37	10	3207632	3207632	+	Missense_Mutation	SNP	A	A	G	rs3814596	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	85	162	0	0.566667	0	A|0.857;G|0.143	0.143	strong	PITRM1,colon,carcinoma,0,1	PITRM1	109	1	NM_014889	exon5	c.T506C	p.F169S	CATGGGAAAAAGG	.	PASS	Atlas-SNP
SCN8A	6334	hgsc.bcm.edu	37	12	52200742	52200742	+	Silent	SNP	C	C	A	rs60637	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	117	162	0	1	0	C|0.455;A|0.545	0.545	strong	.	SCN8A	331	.	NM_014191	exon27	c.C5472A	p.P1824P	CAAGCCCAATACC	.	PASS	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	37	2	33488419	33488419	+	Silent	SNP	G	G	A	rs12468099	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	50	88	0	0.515464	0	G|0.797;A|0.203	0.203	strong	.	LTBP1	317	.	NM_206943	exon15	c.G2577A	p.T859T	TTCTACGTCTAGT	.	PASS	Atlas-SNP
UBE2Z	65264	hgsc.bcm.edu	37	17	47000251	47000251	+	Silent	SNP	C	C	T	rs1058018	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	83	138	0	0.458564	0	C|0.408;T|0.592	0.592	strong	.	.	.	.	NM_023079	exon6	c.C846T	p.Y282Y	CTTCTACGAGGTG	.	PASS	Atlas-SNP
KLF3	51274	hgsc.bcm.edu	37	4	38690515	38690515	+	Missense_Mutation	SNP	A	A	G	rs199559194	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	73	141	0	0.453416	0	A|0.999;G|0.001	0.001	weak	.	KLF3	40	.	NM_016531	exon3	c.A367G	p.M123V	CTGTCCATGCCAC	.	PASS	Atlas-SNP
NCAPH2	29781	hgsc.bcm.edu	37	22	50960682	50960682	+	Splice_Site	SNP	C	C	T	rs140524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	46	97	0	0.547619	0	C|0.810;T|0.190	0.190	strong	NCAPH2,NS,carcinoma,0,1	NCAPH2	69	1	NM_001185011	exon14	c.1233+2C>T	.	GGGAGGCAAGTCC	.	PASS	Atlas-SNP
C7orf31	136895	hgsc.bcm.edu	37	7	25194753	25194753	+	Missense_Mutation	SNP	C	C	T	rs12535348	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244	121	237	0	0.495902	0	C|0.675;N|0.000	.	strong	C7orf31,caecum,carcinoma,0,2	C7orf31	53	2	NM_138811	exon6	c.G472A	p.A158T	ACATGGCGCCGCG	.	PASS	Atlas-SNP
EML5	161436	hgsc.bcm.edu	37	14	89220874	89220874	+	Silent	SNP	C	C	T	rs201072176	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	53	93	0	0.557895	0	C|0.999;T|0.001	0.001	weak	.	EML5	141	.	NM_183387	exon2	c.G339A	p.A113A	GTCAAACGCCAAG	.	PASS	Atlas-SNP
FSD1	79187	hgsc.bcm.edu	37	19	4306311	4306311	+	Silent	SNP	T	T	C	rs4807578	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	41	77	0	0.476744	0	T|0.402;C|0.598	0.598	strong	.	FSD1	51	.	NM_024333	exon3	c.T228C	p.R76R	CAGCCGTACCTAC	.	PASS	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	37	2	132021766	132021766	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	371	8	309	2	0.0215633	0.00647249	.	.	none	ENSG00000188219,rectum,NS,0,1	.	.	1	NM_001083538	exon15	c.A2738C	p.K913T	ACATCAAAGAGAA	.	scavenged	Atlas-SNP
LMTK2	22853	hgsc.bcm.edu	37	7	97822115	97822115	+	Missense_Mutation	SNP	T	T	A	rs11765552	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	28	61	0	0.509091	0	T|0.639;A|0.361	0.361	strong	.	LMTK2	228	.	NM_014916	exon11	c.T2338A	p.L780M	CCAGGCTTGTCTT	.	PASS	Atlas-SNP
PPP2R3A	5523	hgsc.bcm.edu	37	3	135720851	135720851	+	Missense_Mutation	SNP	G	G	T	rs6779903	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	58	91	0	0.591837	0	G|0.660;T|0.340	0.340	strong	.	PPP2R3A	114	.	NM_002718	exon2	c.G511T	p.A171S	GGGAACGCCCCAT	.	PASS	Atlas-SNP
PHC3	80012	hgsc.bcm.edu	37	3	169846937	169846937	+	Silent	SNP	A	A	G	rs373112767		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	58	128	0	0.442748	0	.	.	weak	.	PHC3	113	.	NM_024947	exon8	c.T1323C	p.A441A	CTGGAGAGCTGAT	.	PASS	Atlas-SNP
DHRS1	115817	hgsc.bcm.edu	37	14	24760808	24760808	+	Silent	SNP	C	C	T	rs1131941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	55	99	0	0.426357	0	C|0.827;T|0.173	0.173	strong	.	DHRS1	21	.	NM_138452	exon7	c.G678A	p.A226A	GGTTTCCGCAGAT	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144996408	144996408	+	Silent	SNP	T	T	G	rs11778026	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	17	48	0	0.369565	0	A|0.000;G|0.248;T|0.752	0.248	strong	.	PLEC	1144	.	NM_201380	exon32	c.A7992C	p.A2664A	CTGCTGTGCCTTG	.	PASS	Atlas-SNP
AK2	204	hgsc.bcm.edu	37	1	33502376	33502376	+	Silent	SNP	G	G	A	rs76061645	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244	26	333	0	0.106557	0	G|0.955;A|0.045	0.045	strong	.	AK2	27	.	NM_001199199	exon1	c.C54T	p.A18A	CAGCACGGCCCGG	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	37	9	79986057	79986057	+	Silent	SNP	A	A	G	rs3737289	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	66	92	0	0.519685	0	A|0.606;G|0.394	0.394	strong	.	VPS13A	735	.	NM_001018038	exon67	c.A9069G	p.G3023G	TCAGGGAATAAAA	.	PASS	Atlas-SNP
TYSND1	219743	hgsc.bcm.edu	37	10	71905569	71905569	+	Silent	SNP	C	C	A	rs3750774	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	4	4	4	0	1	0	C|0.608;A|0.392	0.392	strong	.	TYSND1	20	.	NM_173555	exon1	c.G774T	p.L258L	GCCGGGCAGGCAG	.	PASS	Atlas-SNP
ANKFN1	162282	hgsc.bcm.edu	37	17	54450038	54450038	+	Silent	SNP	C	C	A	rs957724	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	27	74	0	0.402985	0	C|0.416;A|0.584	0.584	strong	.	ANKFN1	115	.	NM_153228	exon6	c.C642A	p.L214L	GCACCTCAACACA	.	PASS	Atlas-SNP
FBXL16	146330	hgsc.bcm.edu	37	16	746884	746884	+	Silent	SNP	A	A	C	rs4984683	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	33	67	0	0.423077	0	A|0.718;C|0.282	0.282	strong	.	FBXL16	25	.	NM_153350	exon2	c.T522G	p.V174V	GACGCCAACCAGG	.	PASS	Atlas-SNP
PKP3	11187	hgsc.bcm.edu	37	11	404317	404317	+	Silent	SNP	C	C	T	rs1134578	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	100	103	0	1	0	C|0.528;T|0.472	0.472	strong	.	PKP3	36	.	NM_007183	exon12	c.C2352T	p.F784F	TGACTTCCGGGCG	.	PASS	Atlas-SNP
AKNAD1	254268	hgsc.bcm.edu	37	1	109394978	109394978	+	Silent	SNP	G	G	A	rs17563390	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	126	143	0	1	0	G|0.858;A|0.142	0.142	strong	.	AKNAD1	83	.	NM_152763	exon2	c.C309T	p.D103D	AGAAGCGTCTCCT	.	PASS	Atlas-SNP
HDAC4	9759	hgsc.bcm.edu	37	2	240036959	240036959	+	Silent	SNP	C	C	T	rs79199572	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	42	107	0	0.626866	0	C|0.968;T|0.032	0.032	strong	.	HDAC4	127	.	NM_006037	exon13	c.G1566A	p.P522P	CTCCTCCGGGTGG	.	PASS	Atlas-SNP
C10orf11	83938	hgsc.bcm.edu	37	10	77807027	77807027	+	Silent	SNP	T	T	C	rs1898071	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	98	113	0	1	0	T|0.608;C|0.392	0.392	strong	.	C10orf11	19	.	NM_032024	exon3	c.T280C	p.L94L	GTCAGCTTGGAAA	.	PASS	Atlas-SNP
XPC	7508	hgsc.bcm.edu	37	3	14193889	14193889	+	Silent	SNP	C	C	T	rs2227998	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	67	95	0	0.553719	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
LARP1B	55132	hgsc.bcm.edu	37	4	129100643	129100643	+	Missense_Mutation	SNP	G	G	A	rs12645577	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	178	153	0	1	0	G|0.447;A|0.553	0.553	strong	.	LARP1B	120	.	NM_018078	exon15	c.G1979A	p.R660H	GAGACCGTGGGCC	.	PASS	Atlas-SNP
BTBD6	90135	hgsc.bcm.edu	37	14	105716377	105716377	+	Silent	SNP	C	C	T	rs45452103	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	25	45	0	0.454545	0	C|0.983;T|0.017	0.017	strong	.	BTBD6	24	.	NM_033271	exon5	c.C826T	p.L276L	CATGTTCTGGGGC	.	PASS	Atlas-SNP
FGF9	2254	hgsc.bcm.edu	37	13	22275394	22275394	+	Silent	SNP	A	A	G	rs9509841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	241	232	0	1	0	A|0.203;G|0.797	0.797	strong	.	FGF9	25	.	NM_002010	exon3	c.A447G	p.S149S	GTACTCATCAAAC	.	PASS	Atlas-SNP
ELF5	2001	hgsc.bcm.edu	37	11	34502345	34502345	+	Silent	SNP	T	T	C	rs2231828	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	99	185	0	0.424893	0	T|0.745;C|0.255	0.255	strong	.	ELF5	21	.	NM_198381	exon6	c.A675G	p.T225T	TTCATATGTCATT	.	PASS	Atlas-SNP
MRPS11	64963	hgsc.bcm.edu	37	15	89011232	89011232	+	Silent	SNP	G	G	T	rs61741121	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	100	109	0	0.520833	0	G|0.990;T|0.010	0.010	strong	.	MRPS11	14	.	NM_176805	exon2	c.G159T	p.A53A	GAACGCGGCTCCC	.	PASS	Atlas-SNP
HAGH	3029	hgsc.bcm.edu	37	16	1869147	1869147	+	Silent	SNP	G	G	A	rs56316151	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	46	86	0	0.554217	0	G|0.975;A|0.025	0.025	strong	.	HAGH	20	.	NM_005326	exon5	c.C510T	p.P170P	GCCTCCGGGCTTG	.	PASS	Atlas-SNP
HMGXB3	22993	hgsc.bcm.edu	37	5	149390148	149390148	+	Missense_Mutation	SNP	G	G	A	rs2241698	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	44	87	0	0.628571	0	G|0.869;A|0.131	0.131	strong	.	HMGXB3	31	.	NM_014983	exon4	c.G787A	p.V263I	GAGAGTGTATCAG	.	PASS	Atlas-SNP
PTPRH	5794	hgsc.bcm.edu	37	19	55708573	55708573	+	Silent	SNP	G	G	A	rs2288520	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	278	157	279	0	0.564748	0	G|0.925;A|0.075	0.075	strong	.	PTPRH	139	.	NM_002842	exon9	c.C1902T	p.A634A	TTCCAGGGCCTCC	.	PASS	Atlas-SNP
CR1L	1379	hgsc.bcm.edu	37	1	207850879	207850879	+	Silent	SNP	C	C	T	rs34509370	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	226	108	219	0	0.477876	0	C|0.836;T|0.164	0.164	strong	.	CR1L	97	.	NM_175710	exon2	c.C243T	p.N81N	AAAAAACTCAGTC	.	PASS	Atlas-SNP
NCR1	9437	hgsc.bcm.edu	37	19	55418054	55418054	+	Missense_Mutation	SNP	A	A	C	rs2278428	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	49	74	0	0.532609	0	A|0.889;C|0.111	0.111	strong	.	NCR1	60	.	NM_001145458	exon3	c.A244C	p.K82Q	AAAGTCAAATTCT	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	37	16	21008690	21008690	+	Silent	SNP	T	T	C	rs3115446	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	106	194	0	0.5	0	C|0.498;N|0.000	0.498	strong	.	DNAH3	1142	.	NM_017539	exon44	c.A6516G	p.K2172K	GTCTTTTTTGTCA	.	PASS	Atlas-SNP
MERTK	10461	hgsc.bcm.edu	37	2	112765973	112765973	+	Silent	SNP	A	A	G	rs1131244	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	41	74	0	0.525641	0	A|0.458;G|0.542	0.542	strong	.	MERTK	112	.	NM_006343	exon14	c.A1881G	p.S627S	CTCTTCACAGCGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507927	195507927	+	Silent	SNP	G	G	A	rs201230361	byfrequency;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	557	149	54	0	0.267504	0	G|0.941;T|0.059	.	alt	.	MUC4	1505	.	NM_018406	exon2	c.C10524T	p.T3508T	AGCGCCGGTGACA	.	PASS	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	37	19	41351321	41351321	+	Missense_Mutation	SNP	C	C	T	rs78337605	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	368	44	406	0	0.119565	0	C|0.500;T|0.500	0.500	strong	.	CYP2A6	69	.	NM_000762	exon7	c.G1039A	p.A347T	TCTTGGCCCGGTC	.	PASS	Atlas-SNP
FBP1	2203	hgsc.bcm.edu	37	9	97369151	97369151	+	Silent	SNP	G	G	A	rs1042144	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	85	186	0	0.467033	0	T|0.000;G|0.682;A|0.318	0.318	strong	.	FBP1	13	.	NM_000507	exon5	c.C651T	p.A217A	GTCCCTGGCGTAG	.	PASS	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	37	X	114424597	114424597	+	Missense_Mutation	SNP	G	G	A	rs12009026	bycluster;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	8	8	31	0	1	0	G|0.891;A|0.109	0.109	strong	.	RBMXL3	83	.	NM_001145346	exon1	c.G593A	p.R198H	CACGGCGCTGGGC	.	PASS	Atlas-SNP
SPTAN1	6709	hgsc.bcm.edu	37	9	131379967	131379967	+	Silent	SNP	C	C	T	rs2227862	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	152	118	0	1	0	A|0.099;C|0.234;G|0.085;N|0.000;T|0.582	0.582	strong	.	SPTAN1	266	.	NM_001130438	exon42	c.C5406T	p.T1802T	CCTAACCGGCGTG	.	PASS	Atlas-SNP
ZNF248	57209	hgsc.bcm.edu	37	10	38120720	38120720	+	Silent	SNP	C	C	T	rs1779132	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	57	129	0	0.456	0	C|0.937;T|0.063	0.063	strong	.	ZNF248	61	.	NM_001267597	exon6	c.G1563A	p.K521K	ATTACACTTATAT	.	PASS	Atlas-SNP
NOB1	28987	hgsc.bcm.edu	37	16	69782855	69782855	+	Missense_Mutation	SNP	C	C	T	rs3811348	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	190	197	0	0.984456	0	C|0.585;T|0.415	0.415	strong	.	NOB1	24	.	NM_014062	exon6	c.G692A	p.R231Q	CCAACCCGCACGT	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	133920518	133920518	+	Missense_Mutation	SNP	A	A	G	rs2069556	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	85	98	0	1	0	A|0.577;G|0.423	0.423	strong	TG,caecum,carcinoma,0,1	TG	416	1	NM_003235	exon18	c.A3935G	p.D1312G	ACGCGGATTTGCT	.	PASS	Atlas-SNP
MXD1	4084	hgsc.bcm.edu	37	2	70162534	70162534	+	Silent	SNP	T	T	G	rs2228183	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	58	178	0	0.351515	0	T|0.439;G|0.561	0.561	strong	.	MXD1	23	.	NM_001202513	exon4	c.T255G	p.L85L	GCCACTTGGACCC	.	PASS	Atlas-SNP
MAEA	10296	hgsc.bcm.edu	37	4	1305802	1305802	+	Silent	SNP	C	C	T	rs34402978	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	103	215	0	0.461883	0	C|0.972;T|0.028	0.028	strong	.	MAEA	39	.	NM_005882	exon2	c.C105T	p.A35A	TCGCGCCGCTCAG	.	PASS	Atlas-SNP
TBX1	6899	hgsc.bcm.edu	37	22	19766782	19766782	+	Missense_Mutation	SNP	C	C	T	rs4819522	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	36	83	0	0.5	0	C|0.829;T|0.171	0.171	strong	TBX1_ENST00000329705,colon,carcinoma,0,1	TBX1	62	1	NM_080646	exon9	c.C1049T	p.T350M	CTGAGACGTCTAG	.	PASS	Atlas-SNP
SLC38A7	55238	hgsc.bcm.edu	37	16	58713798	58713798	+	Missense_Mutation	SNP	G	G	A	rs7191331	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	46	49	0	0.605263	0	G|0.855;A|0.145	0.145	strong	SLC38A7,NS,carcinoma,0,1	SLC38A7	26	1	NM_018231	exon3	c.C233T	p.T78I	CCCGCAGTGCTGA	.	PASS	Atlas-SNP
UNC5C	8633	hgsc.bcm.edu	37	4	96166270	96166270	+	Silent	SNP	C	C	T	rs35120448	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	40	79	1	0.449438	0.0126582	C|0.961;T|0.039	0.039	strong	UNC5C,NS,carcinoma,-1,1	UNC5C	141	1	NM_003728	exon6	c.G801A	p.T267T	CCACTCCGTCCAG	.	scavenged	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152422087	152422087	+	Silent	SNP	A	A	G	rs2288211	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	174	168	0	1	0	A|0.732;G|0.268	0.268	strong	NEB,NS,carcinoma,0,1	NEB	1697	1	NM_001271208	exon116	c.T18294C	p.Y6098Y	GTTAGGATAGTTT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507193	195507193	+	Missense_Mutation	SNP	G	G	A	rs201474621	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244	66	117	1	0.270492	0.00854701	G|0.993;T|0.007	.	strong	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C11258T	p.A3753V	GTGGATGCTGAGG	.	scavenged	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11511480	11511480	+	Missense_Mutation	SNP	G	G	A	rs17599639	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	45	84	0	0.48913	0	G|0.971;A|0.029	0.029	strong	DNAH9,NS,malignant_melanoma,+1,1	DNAH9	695	1	NM_001372	exon2	c.G452A	p.R151H	AGAATCGCCTAAA	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134736026	134736026	+	Silent	SNP	G	G	A	rs4880286	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	32	73	0	0.5	0	G|0.640;A|0.360	0.360	strong	.	TTC40	100	.	NM_001200049	exon12	c.C1443T	p.A481A	CTCAGGGGCCTGG	.	PASS	Atlas-SNP
PLCG2	5336	hgsc.bcm.edu	37	16	81971403	81971403	+	Silent	SNP	T	T	C	rs1071644	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	34	72	0	0.478873	0	C|0.387;N|0.000	0.387	strong	.	PLCG2	276	.	NM_002661	exon28	c.T3093C	p.N1031N	TCTCAATGGGCGC	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50744171	50744171	+	Silent	SNP	T	T	C	rs7312252	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	72	153	0	0.510638	0	T|0.378;C|0.622	0.622	strong	FAM186A_ENST00000327337,NS,carcinoma,0,1	FAM186A	181	1	NM_001145475	exon4	c.A6444G	p.T2148T	CTGAACTGTGTCC	.	PASS	Atlas-SNP
ARHGAP25	9938	hgsc.bcm.edu	37	2	69049941	69049941	+	Missense_Mutation	SNP	T	T	C	rs10177248	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	44	63	0	1	0	T|0.655;C|0.345	0.345	strong	.	ARHGAP25	175	.	NM_001007231	exon10	c.T1670C	p.M557T	AGAGGATGGTCCA	.	PASS	Atlas-SNP
DCAF8L2	347442	hgsc.bcm.edu	37	X	27766776	27766776	+	Silent	SNP	G	G	A	rs45553337	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	157	262	1	0.987421	0.00381679	G|0.816;A|0.184	0.184	strong	.	DCAF8L2	79	.	NM_001136533	exon1	c.G1764A	p.T588T	CGTGACGCAGAGA	.	PASS	Atlas-SNP
ADRA2C	152	hgsc.bcm.edu	37	4	3769500	3769500	+	Silent	SNP	C	C	T	rs111546772	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	35	111	0	0.360825	0	C|0.858;T|0.142	0.142	strong	.	ADRA2C	24	.	NM_000683	exon1	c.C1167T	p.G389G	CATGGGCGTGTTC	.	PASS	Atlas-SNP
PNPLA5	150379	hgsc.bcm.edu	37	22	44286950	44286950	+	Missense_Mutation	SNP	G	G	A	rs2071883	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	45	147	0	0.381356	0	G|0.807;A|0.193	0.193	strong	.	PNPLA5	46	.	NM_138814	exon2	c.C418T	p.L140F	GGATGAGCTCATC	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11651057	11651057	+	Missense_Mutation	SNP	A	A	G	rs3744581	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	93	92	0	0.989362	0	A|0.779;G|0.221	0.221	strong	DNAH9,colon,carcinoma,0,1	DNAH9	695	1	NM_001372	exon32	c.A6584G	p.N2195S	TCATCAATCCAGC	.	PASS	Atlas-SNP
PUM1	9698	hgsc.bcm.edu	37	1	31441316	31441316	+	Silent	SNP	T	T	C	rs202191174	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	29	139	0	0.29	0	T|1.000;C|0.000	0.000	strong	.	PUM1	107	.	NM_014676	exon11	c.A1530G	p.Q510Q	AGGACGTTGGCTG	.	PASS	Atlas-SNP
MIA3	375056	hgsc.bcm.edu	37	1	222833538	222833538	+	Silent	SNP	C	C	G	rs2291835	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	89	156	0	0.494444	0	C|0.832;G|0.168	0.168	strong	MIA3,NS,carcinoma,0,1	MIA3	167	1	NM_198551	exon24	c.C4995G	p.G1665G	GAATGGCTCTTTT	.	PASS	Atlas-SNP
QRSL1	55278	hgsc.bcm.edu	37	6	107113715	107113715	+	Silent	SNP	G	G	A	rs2015205	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	70	134	0	0.57377	0	G|0.595;A|0.405	0.405	strong	.	QRSL1	30	.	NM_018292	exon11	c.G1425A	p.L475L	AGGACTGCAGTTT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	54	81	0	0.446281	0	G|0.425;A|0.574	0.574	strong	.	CLSTN2	190	.	NM_022131	exon7	c.G1096A	p.V366I	GCCAAAGTCCCCG	.	PASS	Atlas-SNP
CYP4F11	57834	hgsc.bcm.edu	37	19	16040292	16040292	+	Silent	SNP	A	A	G	rs3765070	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	80	153	0	0.555556	0	A|0.476;G|0.524	0.524	strong	.	CYP4F11	83	.	NM_001128932	exon3	c.T318C	p.I106I	CCGGATAATGTCA	.	PASS	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6172202	6172202	+	Missense_Mutation	SNP	T	T	C	rs1800378	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	26	73	0	0.382353	0	T|0.486;C|0.514	0.514	strong	VWF,NS,carcinoma,0,1	VWF	338	1	NM_000552	exon13	c.A1451G	p.H484R	ACTGTATGCTGGA	.	PASS	Atlas-SNP
OLIG2	10215	hgsc.bcm.edu	37	21	34399401	34399401	+	Silent	SNP	A	A	G	rs762178	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	60	116	0	0.483871	0	A|0.498;G|0.502	0.502	strong	.	OLIG2	22	.	NM_005806	exon2	c.A231G	p.S77S	CAAGTCATCCTCG	.	PASS	Atlas-SNP
PCDHGA3	56112	hgsc.bcm.edu	37	5	140723835	140723835	+	Missense_Mutation	SNP	C	C	T	rs11575947	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	78	139	0	0.573529	0	C|0.935;T|0.065	0.065	strong	PCDHGA3_ENST00000253812,NS,carcinoma,-2,3	PCDHGA3	246	3	NM_032011	exon1	c.C235T	p.P79S	CTGAATCCGCAAA	.	PASS	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	37	1	237617757	237617757	+	Silent	SNP	C	C	T	rs3765097	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	63	130	1	0.473684	0.00769231	C|0.454;T|0.546	0.546	strong	RYR2,lower_third,carcinoma,+1,1	RYR2	1273	1	NM_001035	exon15	c.C1359T	p.S453S	CGTAAGCCTAAGT	.	scavenged	Atlas-SNP
NRG1	3084	hgsc.bcm.edu	37	8	32613983	32613983	+	Missense_Mutation	SNP	T	T	C	rs10503929	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	33	58	0	0.507692	0	T|0.891;C|0.109	0.109	strong	.	NRG1	260	.	NM_013956	exon10	c.T881C	p.M294T	ACAATATGATGAA	.	PASS	Atlas-SNP
SBNO1	55206	hgsc.bcm.edu	37	12	123806219	123806219	+	Missense_Mutation	SNP	C	C	T	rs1060105	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	325	160	317	0	0.492308	0	C|0.855;T|0.145	0.145	strong	.	SBNO1	138	.	NM_001167856	exon16	c.G2186A	p.S729N	TCAGAACTGCTAC	.	PASS	Atlas-SNP
FMO3	2328	hgsc.bcm.edu	37	1	171076966	171076966	+	Missense_Mutation	SNP	G	G	A	rs2266782	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	97	128	0	0.570588	0	G|0.622;A|0.378	0.378	strong	.	FMO3	73	.	NM_006894	exon4	c.G472A	p.E158K	CCAAAAGAGTCCT	.	PASS	Atlas-SNP
CYP2F1	1572	hgsc.bcm.edu	37	19	41633980	41633980	+	Missense_Mutation	SNP	C	C	T	rs7246981	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	80	145	0	0.493827	0	C|0.948;T|0.052	0.052	strong	.	CYP2F1	60	.	NM_000774	exon10	c.C1469T	p.P490L	TGCGCCCGCGCTA	.	PASS	Atlas-SNP
SLIT1	6585	hgsc.bcm.edu	37	10	98820528	98820528	+	Silent	SNP	C	C	G	rs33970910	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	54	126	0	0.5	0	C|0.870;G|0.130	0.130	strong	.	SLIT1	154	.	NM_003061	exon9	c.G810C	p.G270G	CACGCGCCCCGCT	.	PASS	Atlas-SNP
F13B	2165	hgsc.bcm.edu	37	1	197029592	197029592	+	Missense_Mutation	SNP	C	C	T	rs145637157	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	105	184	0	0.517241	0	C|1.000;T|0.000	0.000	weak	.	F13B	137	.	NM_001994	exon5	c.G709A	p.V237I	ACTGAACGACATC	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	20065673	20065673	+	Missense_Mutation	SNP	G	G	T	rs3802799	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	45	76	0	0.46875	0	G|0.806;T|0.194	0.194	strong	.	NAV2	255	.	NM_001244963	exon14	c.G3123T	p.E1041D	TGACGAGTCCGAC	.	PASS	Atlas-SNP
SLC44A5	204962	hgsc.bcm.edu	37	1	75699771	75699771	+	Silent	SNP	A	A	G	rs10493565	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	66	120	0	0.52381	0	A|0.766;G|0.234	0.234	strong	SLC44A5,NS,carcinoma,0,1	SLC44A5	231	1	NM_152697	exon12	c.T753C	p.I251I	CATGGCAATCGTC	.	PASS	Atlas-SNP
UGT2B11	10720	hgsc.bcm.edu	37	4	70079838	70079838	+	Silent	SNP	T	T	C	rs76397688		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	123	220	0	0.471264	0	.	.	weak	UGT2B11,NS,carcinoma,0,1	UGT2B11	92	1	NM_001073	exon1	c.A603G	p.L201L	ATCACTTAATTTT	.	PASS	Atlas-SNP
MAGED2	10916	hgsc.bcm.edu	37	X	54841737	54841737	+	Silent	SNP	G	G	A	rs11555927	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	73	104	0	0.986486	0	G|0.906;0|0.003	.	strong	.	MAGED2	74	.	NM_201222	exon12	c.G1443A	p.A481A	GGAAGCGGATTTG	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187629497	187629497	+	Silent	SNP	G	G	A	rs458021	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	70	81	0	1	0	G|0.554;A|0.446	0.446	strong	.	FAT1	500	.	NM_005245	exon2	c.C1485T	p.N495N	GTACCCGTTCTCA	.	PASS	Atlas-SNP
IGSF10	285313	hgsc.bcm.edu	37	3	151161112	151161112	+	Missense_Mutation	SNP	A	A	G	rs12487205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	48	97	0	0.396694	0	A|0.969;G|0.031	0.031	strong	.	IGSF10	279	.	NM_178822	exon5	c.T5623C	p.Y1875H	CCCAGTAAACGCT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9056982	9056982	+	Missense_Mutation	SNP	G	G	A	rs11670318	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	63	111	0	0.533898	0	G|0.740;A|0.260	0.260	strong	.	MUC16	4315	.	NM_024690	exon3	c.C30464T	p.T10155I	AATCCTGTGGTCT	.	PASS	Atlas-SNP
KIAA1217	56243	hgsc.bcm.edu	37	10	24834980	24834980	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	129	255	0	0.476015	0	.	.	none	KIAA1217,NS,carcinoma,0,1	KIAA1217	235	1	NM_019590	exon21	c.C5559T	p.L1853L	CTCCCTCATCCCT	.	PASS	Atlas-SNP
GFRA4	64096	hgsc.bcm.edu	37	20	3640823	3640823	+	Silent	SNP	C	C	T	rs2853208	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	82	127	0	1	0	C|0.641;T|0.359	0.359	strong	GFRA4,NS,carcinoma,0,1	GFRA4	10	1	NM_145762	exon4	c.G801A	p.P267P	GTGCTCCGGGTCT	.	PASS	Atlas-SNP
ATN1	1822	hgsc.bcm.edu	37	12	7047143	7047143	+	Silent	SNP	C	C	A	rs7969685	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	9	47	0	0.6	0	C|0.802;A|0.198	0.198	strong	.	ATN1	95	.	NM_001007026	exon6	c.C2430A	p.R810R	GCAGCGCGCGCGC	.	PASS	Atlas-SNP
MLPH	79083	hgsc.bcm.edu	37	2	238449023	238449023	+	Silent	SNP	T	T	C	rs3817363	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	54	115	0	0.364865	0	T|0.874;C|0.126	0.126	strong	MLPH,NS,carcinoma,0,2	MLPH	41	2	NM_024101	exon10	c.T1137C	p.D379D	GGCCGATGTAGAG	.	PASS	Atlas-SNP
UHRF2	115426	hgsc.bcm.edu	37	9	6506038	6506038	+	Silent	SNP	C	C	T	rs33962342	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	70	177	0	0.518519	0	C|0.886;T|0.114	0.114	strong	UHRF2,right_upper_lobe,carcinoma,+1,1	UHRF2	50	1	NM_152896	exon16	c.C2268T	p.C756C	GGATTGCCTACAG	.	PASS	Atlas-SNP
CACNA1G	8913	hgsc.bcm.edu	37	17	48653354	48653354	+	Silent	SNP	C	C	A	rs12449998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	88	124	0	1	0	C|0.469;A|0.531	0.531	strong	CACNA1G_ENST00000416767,caecum,carcinoma,0,8	CACNA1G	659	8	NM_001256360	exon8	c.C1591A	p.R531R	TCCCGCCGGCTCA	.	PASS	Atlas-SNP
FCRL5	83416	hgsc.bcm.edu	37	1	157508882	157508882	+	Missense_Mutation	SNP	C	C	T	rs6427384	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	140	122	1	1	0.00819672	C|0.305;T|0.695	0.695	strong	.	FCRL5	177	.	NM_031281	exon7	c.G1396A	p.V466I	CAGTGACGGAGAG	.	PASS	Atlas-SNP
FAM46D	169966	hgsc.bcm.edu	37	X	79698593	79698593	+	Missense_Mutation	SNP	C	C	G	rs1113265	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	93	146	0	0.978947	0	C|0.503;0|0.028	.	strong	.	FAM46D	69	.	NM_001170574	exon5	c.C555G	p.D185E	GTTAGACTTCTAC	.	PASS	Atlas-SNP
TEKT4	150483	hgsc.bcm.edu	37	2	95537568	95537568	+	Missense_Mutation	SNP	C	C	T	rs80243548	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	10	36	0	0.625	0	C|0.978;G|0.007;T|0.015	0.015	strong	TEKT4,bladder,carcinoma,-2,2	TEKT4	72	2	NM_144705	exon1	c.C244T	p.R82C	GCGCAGCGCACGC	.	PASS	Atlas-SNP
NDUFA6	4700	hgsc.bcm.edu	37	22	42486723	42486723	+	Missense_Mutation	SNP	G	G	A	rs1801311	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	71	106	0	0.586777	0	G|0.625;A|0.375	0.375	strong	.	NDUFA6	13	.	NM_002490	exon1	c.C104T	p.A35V	GAAGTAGCTTGGC	.	PASS	Atlas-SNP
FRMPD2	143162	hgsc.bcm.edu	37	10	49400730	49400730	+	Missense_Mutation	SNP	C	C	T	rs116034788	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	60	121	0	0.458015	0	C|0.998;T|0.002	0.002	strong	FRMPD2,NS,carcinoma,-1,1	FRMPD2	157	1	NM_001018071	exon16	c.G2162A	p.R721H	CACCTGCGCCCGA	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6532519	6532519	+	Missense_Mutation	SNP	C	C	T	rs4758423	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	94	193	0	0.467662	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
GIF	2694	hgsc.bcm.edu	37	11	59611362	59611362	+	Silent	SNP	G	G	A	rs35792306	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	98	210	0	0.4689	0	G|0.937;A|0.063	0.063	strong	.	GIF	43	.	NM_005142	exon2	c.C246T	p.S82S	GTTGTCGCTGGAC	.	PASS	Atlas-SNP
C22orf28	51493	hgsc.bcm.edu	37	22	32795641	32795641	+	Silent	SNP	C	C	T	rs5749426	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	129	158	0	0.992308	0	C|0.552;T|0.448	0.448	strong	.	C22orf28	43	.	NM_014306	exon6	c.G603A	p.Q201Q	GTCAGCCTGCAGC	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17272037	17272037	+	Missense_Mutation	SNP	G	G	A	rs142404824	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	413	197	344	0	0.476998	0	G|0.972;A|0.028	0.028	strong	CROCC,colon,carcinoma,-1,1	CROCC	185	1	NM_014675	exon15	c.G2072A	p.R691H	TGAGCCGCGCCAC	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54746051	54746051	+	Missense_Mutation	SNP	A	A	C	rs620207	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1104	563	1616	1	0.509964	0.000618812	A|0.514;C|0.486	0.486	strong	.	LILRA6	75	.	NM_024318	exon3	c.T206G	p.L69W	CTGTCCAAGGGCT	.	PASS	Atlas-SNP
TMEM2	23670	hgsc.bcm.edu	37	9	74354983	74354983	+	Silent	SNP	A	A	G	rs25691	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	32	68	0	0.477612	0	A|0.937;G|0.063	0.063	strong	.	TMEM2	112	.	NM_001135820	exon5	c.T1200C	p.I400I	ACCTTCAATCCAT	.	PASS	Atlas-SNP
CD24	100133941	hgsc.bcm.edu	37	Y	21154426	21154426	+	Missense_Mutation	SNP	G	G	A	rs52812045	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	25	69	0	0.204918	0	G|0.500;A|0.500	0.500	weak	.	.	.	.	NM_013230	exon1	c.C170T	p.A57V	CCAGCCGCCTTGG	.	PASS	Atlas-SNP
SH3RF1	57630	hgsc.bcm.edu	37	4	170037572	170037572	+	Missense_Mutation	SNP	G	G	A	rs3811813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	74	139	0	0.532374	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
ZNF317	57693	hgsc.bcm.edu	37	19	9267319	9267319	+	Missense_Mutation	SNP	G	G	T	rs3752199	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	42	73	0	0.512195	0	G|0.865;T|0.135	0.135	strong	ZNF317,NS,carcinoma,0,1	ZNF317	61	1	NM_020933	exon3	c.G57T	p.Q19H	TCTCCAGGACTCA	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18376517	18376517	+	Silent	SNP	C	C	T	rs61740752	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	79	184	0	0.451429	0	C|0.886;T|0.114	0.114	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.G1833A	p.Q611Q	CTGTTTCTGGGTG	.	PASS	Atlas-SNP
AMICA1	120425	hgsc.bcm.edu	37	11	118081345	118081345	+	Missense_Mutation	SNP	A	A	T	rs17121881	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	112	171	0	0.605405	0	A|0.546;N|0.000	.	strong	AMICA1,caecum,carcinoma,0,2	AMICA1	49	2	NM_001098526	exon4	c.T281A	p.I94N	CATAAGATGTCCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	32	77	2	0.457143	0.025974	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	.	scavenged	Atlas-SNP
FAM205A	259308	hgsc.bcm.edu	37	9	34726155	34726155	+	Missense_Mutation	SNP	C	C	T	rs76045500	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	525	212	540	0	0.40381	0	C|0.937;T|0.063	0.063	strong	.	FAM205A	45	.	NM_001141917	exon4	c.G1082A	p.C361Y	CATGAACACCAGG	.	PASS	Atlas-SNP
PADI4	23569	hgsc.bcm.edu	37	1	17674537	17674537	+	Silent	SNP	C	C	A	rs2240335	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	21	57	0	0.42	0	C|0.608;A|0.392	0.392	strong	.	PADI4	70	.	NM_012387	exon10	c.C1149A	p.R383R	CAAACGCGTGATG	.	PASS	Atlas-SNP
IL32	9235	hgsc.bcm.edu	37	16	3119304	3119304	+	Missense_Mutation	SNP	A	A	G	rs2981599	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	66	126	0	0.335025	0	.	.	weak	IL32,NS,carcinoma,+1,2	IL32	32	2	NM_004221	exon7	c.A515G	p.D172G	GGGGGGACAAGGA	.	PASS	Atlas-SNP
SDC4	6385	hgsc.bcm.edu	37	20	43956017	43956017	+	Missense_Mutation	SNP	C	C	T	rs202142981	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	55	103	0	0.474138	0	.	.	weak	.	SDC4	16	.	NM_002999	exon5	c.G484A	p.V162I	GGAAGACGGCAAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	84	167	0	0.535032	0	T|0.651;C|0.349	0.349	strong	.	GABRR1	63	.	NM_001256703	exon1	c.A76G	p.M26V	AGTGCATTCTGCT	.	PASS	Atlas-SNP
CPN1	1369	hgsc.bcm.edu	37	10	101802262	101802262	+	Silent	SNP	G	G	A	rs61733667	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	65	129	0	0.580357	0	G|0.971;A|0.029	0.029	strong	.	CPN1	62	.	NM_001308	exon9	c.C1299T	p.H433H	GACTCCGTGCCTT	.	PASS	Atlas-SNP
STXBP4	252983	hgsc.bcm.edu	37	17	53158492	53158492	+	Silent	SNP	G	G	A	rs8069999	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	82	173	0	0.416244	0	G|0.813;A|0.187	0.187	strong	.	STXBP4	41	.	NM_178509	exon16	c.G1437A	p.A479A	GCTGGCGCTTGAA	.	PASS	Atlas-SNP
NOL10	79954	hgsc.bcm.edu	37	2	10717806	10717806	+	Missense_Mutation	SNP	C	C	T	rs2287059	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	188	186	0	0.994709	0	C|0.810;T|0.190	0.190	strong	.	NOL10	22	.	NM_024894	exon20	c.G1903A	p.D635N	TGGTGTCGGATAC	.	PASS	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30887988	30887988	+	Silent	SNP	C	C	T	rs2249459	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	91	134	0	0.598684	0	C|0.730;T|0.270	0.270	strong	.	VARS2	60	.	NM_001167734	exon13	c.C1378T	p.L460L	GACTGGCTGCAGG	.	PASS	Atlas-SNP
MYOM1	8736	hgsc.bcm.edu	37	18	3141939	3141939	+	Missense_Mutation	SNP	T	T	C	rs200179081	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	29	83	0	0.325843	0	.	.	weak	.	MYOM1	192	.	NM_003803	exon14	c.A2023G	p.K675E	TTACCTTTTCCAC	.	PASS	Atlas-SNP
ZNF415	55786	hgsc.bcm.edu	37	19	53612989	53612989	+	Silent	SNP	A	A	G	rs1054484	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	311	159	260	0	0.511254	0	A|0.848;G|0.152	0.152	strong	ZNF415,NS,carcinoma,0,1	ZNF415	68	1	NM_018355	exon4	c.T309C	p.D103D	TCTTTCATCATCT	.	PASS	Atlas-SNP
PPL	5493	hgsc.bcm.edu	37	16	4935146	4935146	+	Silent	SNP	C	C	T	rs1049206	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	76	143	0	0.457831	0	C|0.673;T|0.327	0.327	strong	PPL,NS,carcinoma,0,1	PPL	168	1	NM_002705	exon22	c.G3510A	p.V1170V	CTCCTGCACCACC	.	PASS	Atlas-SNP
FCRL1	115350	hgsc.bcm.edu	37	1	157771880	157771880	+	Silent	SNP	C	C	T	rs4971154	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	303	167	213	0	0.551155	0	C|0.596;T|0.404	0.404	strong	FCRL1,NS,carcinoma,-1,1	FCRL1	164	1	NM_001159397	exon5	c.G711A	p.P237P	CAGGATCGGAGGA	.	PASS	Atlas-SNP
TCEB3B	51224	hgsc.bcm.edu	37	18	44559844	44559844	+	Missense_Mutation	SNP	G	G	A	rs61743415	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	47	97	0	0.546512	0	G|0.988;A|0.012	0.012	strong	.	TCEB3B	141	.	NM_016427	exon1	c.C1792T	p.P598S	CCTGTGGCTTTTC	.	PASS	Atlas-SNP
PHRF1	57661	hgsc.bcm.edu	37	11	582056	582056	+	Silent	SNP	G	G	A	rs117660271	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	34	67	0	0.441558	0	G|0.997;A|0.003	0.003	strong	.	PHRF1	188	.	NM_020901	exon3	c.G189A	p.E63E	GTCTGAGGAGGAA	.	PASS	Atlas-SNP
GLIS1	148979	hgsc.bcm.edu	37	1	54060248	54060248	+	Missense_Mutation	SNP	T	T	C	rs4307514	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	63	142	0	0.552632	0	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	.	PASS	Atlas-SNP
E2F2	1870	hgsc.bcm.edu	37	1	23847464	23847464	+	Missense_Mutation	SNP	C	C	A	rs2075995	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	176	162	0	0.99435	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
FAM86A	196483	hgsc.bcm.edu	37	16	5140541	5140541	+	Missense_Mutation	SNP	G	G	C	rs9673733	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	113	243	0	0.46888	0	G|0.920;C|0.080	0.080	strong	.	FAM86A	32	.	NM_201400	exon5	c.C368G	p.S123C	CTCTCGGAGAGTG	.	PASS	Atlas-SNP
PTPRB	5787	hgsc.bcm.edu	37	12	70989977	70989977	+	Silent	SNP	T	T	C	rs11178317	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	76	127	0	0.506667	0	C|0.170;N|0.000	0.170	strong	.	PTPRB	676	.	NM_001109754	exon5	c.A1110G	p.Q370Q	TATCTTTTGGTTA	.	PASS	Atlas-SNP
CCDC50	152137	hgsc.bcm.edu	37	3	191100561	191100561	+	Silent	SNP	C	C	A	rs364519	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	264	330	0	0.996226	0	A|0.606;C|0.394;G|0.000;T|0.000	0.606	strong	.	CCDC50	39	.	NM_178335	exon10	c.C1269A	p.S423S	AAATTCCAAGTCA	.	PASS	Atlas-SNP
CCT6B	10693	hgsc.bcm.edu	37	17	33269648	33269648	+	Missense_Mutation	SNP	C	C	G	rs2230553	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	50	44	0	1	0	C|0.717;G|0.283	0.283	strong	.	CCT6B	63	.	NM_006584	exon7	c.G740C	p.G247A	AAGAAACCAGAGT	.	PASS	Atlas-SNP
SH2D4B	387694	hgsc.bcm.edu	37	10	82369219	82369219	+	Missense_Mutation	SNP	T	T	A	rs17107368	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	64	106	0	0.507937	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
WDR90	197335	hgsc.bcm.edu	37	16	706534	706534	+	Silent	SNP	G	G	A	rs28485323	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	13	51	0	0.565217	0	G|0.606;A|0.394	0.394	strong	.	WDR90	107	.	NM_145294	exon18	c.G2199A	p.Q733Q	CCTGCAGCAGGTG	.	PASS	Atlas-SNP
VEZT	55591	hgsc.bcm.edu	37	12	95693943	95693943	+	Missense_Mutation	SNP	G	G	A	rs17344738	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	12	28	0	0.521739	0	G|0.947;A|0.053	0.053	strong	.	VEZT	106	.	NM_017599	exon12	c.G1834A	p.V612M	GAAGCCGTGTTGA	.	PASS	Atlas-SNP
IREB2	3658	hgsc.bcm.edu	37	15	78789534	78789534	+	Missense_Mutation	SNP	A	A	G	rs140959198	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	83	167	0	0.488235	0	A|0.998;G|0.002	0.002	strong	.	IREB2	106	.	NM_004136	exon21	c.A2662G	p.I888V	ATTGGCATAGCTC	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145299838	145299838	+	Missense_Mutation	SNP	G	G	A	rs200473325	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	7	208	1	0.0714286	0.00480769	G|0.733;A|0.266	0.266	strong	NBPF10_ENST00000369338,NS,carcinoma,0,10	NBPF10	221	10	NM_001039703	exon6	c.G887A	p.R296H	AATTGCGCCCCCA	.	scavenged	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076929	9076929	+	Missense_Mutation	SNP	T	T	G	rs2547075	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	152	283	1	0.531469	0.00353357	T|0.743;G|0.257	0.257	strong	.	MUC16	4315	.	NM_024690	exon3	c.A10517C	p.K3506T	TCACTTTTCACTG	.	PASS	Atlas-SNP
KRTAP13-2	337959	hgsc.bcm.edu	37	21	31744127	31744127	+	Nonsense_Mutation	SNP	A	A	T	rs877346	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	91	208	0	0.526012	0	A|0.636;T|0.364	0.364	strong	.	KRTAP13-2	29	.	NM_181621	exon1	c.T405A	p.C135X	GAAGCCACAGCTT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	67	123	0	0.523438	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
UTRN	7402	hgsc.bcm.edu	37	6	144843252	144843252	+	Missense_Mutation	SNP	C	C	T	rs148691257	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	40	145	0	0.31746	0	C|1.000;T|0.000	0.000	strong	.	UTRN	327	.	NM_007124	exon39	c.C5678T	p.P1893L	ATGTTCCAGAGCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	78	79	0	0.987342	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
OR1I1	126370	hgsc.bcm.edu	37	19	15198024	15198024	+	Missense_Mutation	SNP	A	A	T	rs59166286	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	382	205	430	0	0.536649	0	A|0.866;T|0.134	0.134	strong	OR1I1,NS,meningioma,0,1	OR1I1	58	1	NM_001004713	exon1	c.A148T	p.I50F	GCCATCATCACGG	.	PASS	Atlas-SNP
VPRBP	9730	hgsc.bcm.edu	37	3	51475454	51475454	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	68	123	0	0.468966	0	.	.	none	.	VPRBP	107	.	NM_014703	exon8	c.A973G	p.I325V	GCTCGATAGCAGG	.	PASS	Atlas-SNP
TPTE	7179	hgsc.bcm.edu	37	21	10943003	10943003	+	Missense_Mutation	SNP	C	C	T	rs1810856	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	498	138	237	0	0.277108	0	C|0.923;T|0.077	0.077	strong	TPTE_ENST00000361285,lower_third,carcinoma,-1,8	TPTE	513	8	NM_199261	exon12	c.G584A	p.R195Q	AGAAGTCGAAGTA	.	PASS	Atlas-SNP
SLC4A2	6522	hgsc.bcm.edu	37	7	150763655	150763655	+	Silent	SNP	T	T	A	rs2229549	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	19	78	0	0.513514	0	T|0.406;A|0.594	0.594	strong	.	SLC4A2	98	.	NM_003040	exon6	c.T630A	p.T210T	TGGCACTGCAGGG	.	PASS	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	37	2	228882970	228882970	+	Missense_Mutation	SNP	T	T	C	rs3828161	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	314	160	287	0	0.509554	0	T|0.776;C|0.224	0.224	strong	SPHKAP_ENST00000392056,colon,carcinoma,0,2	SPHKAP	750	2	NM_030623	exon7	c.A2600G	p.Q867R	CTGGACTGGCTGA	.	PASS	Atlas-SNP
MYH3	4621	hgsc.bcm.edu	37	17	10542886	10542886	+	Silent	SNP	T	T	C	rs2285472	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	262	259	318	0	0.98855	0	T|0.431;C|0.569	0.569	strong	.	MYH3	227	.	NM_002470	exon23	c.A2916G	p.T972T	GTTCTCTGTGGCA	.	PASS	Atlas-SNP
PNMAL1	55228	hgsc.bcm.edu	37	19	46974003	46974003	+	Missense_Mutation	SNP	C	C	T	rs7248888	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	25	74	0	0.337838	0	C|0.924;T|0.076	0.076	strong	.	PNMAL1	87	.	NM_018215	exon2	c.G290A	p.C97Y	TCTCTACAGACCA	.	PASS	Atlas-SNP
CLPTM1	1209	hgsc.bcm.edu	37	19	45490636	45490636	+	Silent	SNP	T	T	C	rs204468	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	71	75	0	1	0	T|0.502;C|0.498	0.498	strong	.	CLPTM1	109	.	NM_001294	exon8	c.T993C	p.G331G	CCTGGGTGATGAG	.	PASS	Atlas-SNP
SLC29A3	55315	hgsc.bcm.edu	37	10	73111408	73111408	+	Missense_Mutation	SNP	C	C	T	rs780668	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	90	169	0	0.580645	0	T|0.565;G|0.003	0.565	strong	.	SLC29A3	51	.	NM_018344	exon4	c.C473T	p.S158F	ACACTTCCTCCTG	.	PASS	Atlas-SNP
HEATR5A	25938	hgsc.bcm.edu	37	14	31782394	31782394	+	Silent	SNP	G	G	A	rs61754286	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	111	213	0	0.482609	0	G|0.993;A|0.007	0.007	strong	.	HEATR5A	181	.	NM_015473	exon28	c.C4221T	p.V1407V	TATGTAGACCTGT	.	PASS	Atlas-SNP
COL4A2	1284	hgsc.bcm.edu	37	13	111102126	111102126	+	Silent	SNP	C	C	T	rs74941798	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	9	26	0	0.391304	0	A|0.000;C|0.724;T|0.276	0.276	strong	.	COL4A2	178	.	NM_001846	exon19	c.C1179T	p.I393I	CTCCATCGGAGAT	.	PASS	Atlas-SNP
AFF3	3899	hgsc.bcm.edu	37	2	100218080	100218080	+	Silent	SNP	G	G	A	rs4851214	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	13	8	21	0	0.615385	0	G|0.776;A|0.224	0.224	strong	.	AFF3	164	.	NM_001025108	exon13	c.C1263T	p.A421A	GACCACGGCGCTG	.	PASS	Atlas-SNP
JPH3	57338	hgsc.bcm.edu	37	16	87678165	87678165	+	Silent	SNP	G	G	A	rs3751725	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	63	64	0	0.984375	0	G|0.816;A|0.184	0.184	strong	.	JPH3	95	.	NM_020655	exon2	c.G684A	p.S228S	CAAGTCGGAGTCC	.	PASS	Atlas-SNP
SH3GL3	6457	hgsc.bcm.edu	37	15	84255758	84255758	+	Silent	SNP	T	T	C	rs17158793	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	125	190	0	0.545852	0	T|0.936;C|0.064	0.064	strong	.	SH3GL3	91	.	NM_003027	exon7	c.T648C	p.A216A	GTTGGCTGTGTTC	.	PASS	Atlas-SNP
RBM15	64783	hgsc.bcm.edu	37	1	110883569	110883569	+	Silent	SNP	A	A	T	rs3738752	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	38	87	0	0.387755	0	A|0.840;T|0.160	0.160	strong	RBM15_ENST00000369784,NS,carcinoma,0,1	RBM15	93	1	NM_022768	exon1	c.A1542T	p.P514P	CTTCCCACTTGGT	.	PASS	Atlas-SNP
CD163	9332	hgsc.bcm.edu	37	12	7649484	7649484	+	Missense_Mutation	SNP	T	T	C	rs4883263	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	84	84	0	1	0	T|0.180;C|0.820	0.820	strong	.	CD163	221	.	NM_203416	exon5	c.A1024G	p.I342V	GCCAGATAGCAGG	.	PASS	Atlas-SNP
EVC	2121	hgsc.bcm.edu	37	4	5806512	5806512	+	Silent	SNP	G	G	A	rs115976359	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	40	54	0	0.416667	0	G|0.991;A|0.009	0.009	strong	EVC,colon,carcinoma,0,3	EVC	90	3	NM_153717	exon17	c.G2505A	p.S835S	CCCTTCGTCGGGC	.	PASS	Atlas-SNP
BTBD7	55727	hgsc.bcm.edu	37	14	93712290	93712290	+	Missense_Mutation	SNP	C	C	A	rs61991737	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	34	71	0	0.441558	0	C|0.999;A|0.001	0.001	strong	.	BTBD7	112	.	NM_001002860	exon10	c.G2464T	p.A822S	GTGCAGCTTTCAC	.	PASS	Atlas-SNP
HMGCS2	3158	hgsc.bcm.edu	37	1	120293454	120293454	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	60	113	0	0.526316	0	.	.	none	.	HMGCS2	58	.	NM_005518	exon9	c.C1498T	p.R500C	TTCGGCGATGCTG	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	37	19	17740115	17740115	+	Silent	SNP	G	G	A	rs61753902	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	36	75	0	0.537313	0	G|0.968;A|0.032	0.032	strong	.	UNC13A	299	.	NM_001080421	exon30	c.C3687T	p.L1229L	CTGGAGGAGCACA	.	PASS	Atlas-SNP
POLR2A	5430	hgsc.bcm.edu	37	17	7412403	7412403	+	Silent	SNP	T	T	C	rs2228133	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	272	117	240	1	0.430147	0.00416667	T|0.909;C|0.091	0.091	strong	.	POLR2A	157	.	NM_000937	exon21	c.T3606C	p.F1202F	TGACTTTGATGTG	.	PASS	Atlas-SNP
ATF7IP	55729	hgsc.bcm.edu	37	12	14587301	14587301	+	Missense_Mutation	SNP	A	A	G	rs3213764	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	61	138	0	0.426573	0	A|0.556;G|0.444	0.444	strong	ATF7IP,NS,carcinoma,0,1	ATF7IP	136	1	NM_018179	exon3	c.A1589G	p.K530R	ACAACAAACCTGA	.	PASS	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49196490	49196490	+	Silent	SNP	T	T	C	rs79718244		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	417	136	411	0	0.326139	0	C|1.000;|0.000	1.000	weak	.	FOLH1	141	.	NM_004476	exon9	c.A1059G	p.T353T	AATTCTTGTCACT	.	PASS	Atlas-SNP
CUTC	51076	hgsc.bcm.edu	37	10	101502968	101502968	+	Silent	SNP	A	A	G	rs3740076	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	338	188	383	0	0.556213	0	A|0.931;G|0.069	0.069	strong	.	CUTC	32	.	NM_015960	exon4	c.A252G	p.P84P	TCGGCCACGGGGA	.	PASS	Atlas-SNP
FAM46C	54855	hgsc.bcm.edu	37	1	118166096	118166096	+	Silent	SNP	C	C	T	rs2884587	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	76	261	0	0.351852	0	C|0.874;T|0.126	0.126	strong	.	FAM46C	25	.	NM_017709	exon2	c.C606T	p.I202I	TCCCATCTCTGAG	.	PASS	Atlas-SNP
ERCC6	2074	hgsc.bcm.edu	37	10	50681033	50681033	+	Silent	SNP	G	G	A	rs2229760	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	140	127	1	1	0.00787402	G|0.702;A|0.298	0.298	strong	ERCC6,NS,carcinoma,0,1	ERCC6	162	1	NM_000124	exon15	c.G2751T	p.R917R	TAAGCCGCCCACC	.	PASS	Atlas-SNP
KRTAP10-10	353333	hgsc.bcm.edu	37	21	46057422	46057422	+	Missense_Mutation	SNP	T	T	A	rs112205018	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	79	167	0	0.530201	0	T|0.742;A|0.258	0.258	strong	KRTAP10-10,caecum,carcinoma,0,1	KRTAP10-10	37	1	NM_181688	exon1	c.T88A	p.C30S	GAGCCCTGCTGCT	.	PASS	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	37	14	96829290	96829290	+	Silent	SNP	G	G	A	rs12434329	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	129	148	0	1	0	G|0.482;A|0.518	0.518	strong	.	ATG2B	169	.	NM_018036	exon1	c.C24T	p.S8S	CTTGATGGACTCC	.	PASS	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	37	3	130116696	130116696	+	Missense_Mutation	SNP	A	A	C	rs12488457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	164	178	0	1	0	A|0.620;C|0.380	0.380	strong	.	COL6A5	205	.	NM_153264	exon9	c.A3838C	p.T1280P	GGGCCAACTCATC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	96	132	0	1	0	G|0.505;A|0.495	0.495	strong	.	SLC3A1	62	.	NM_000341	exon10	c.G1854A	p.M618I	TAAAATGAGAATA	.	PASS	Atlas-SNP
FLT1	2321	hgsc.bcm.edu	37	13	28883061	28883061	+	Silent	SNP	G	G	A	rs7993418	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	53	57	0	1	0	G|0.320;A|0.680	0.680	strong	.	FLT1	393	.	NM_002019	exon28	c.C3639T	p.Y1213Y	ATTTACGTATCTA	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190876277	190876277	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	543	43	401	0	0.0791897	0	.	.	none	FRG1,trunk,malignant_melanoma,0,1	FRG1	76	1	NM_004477	exon5	c.A403T	p.R135X	GGACCAAGAGAAC	.	PASS	Atlas-SNP
AMPD3	272	hgsc.bcm.edu	37	11	10521764	10521764	+	Silent	SNP	T	T	C	rs3741041	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	82	184	0	0.455556	0	T|0.653;C|0.347	0.347	strong	.	AMPD3	68	.	NM_000480	exon11	c.T1716C	p.Y572Y	CATGTATGCCAAC	.	PASS	Atlas-SNP
CELSR3	1951	hgsc.bcm.edu	37	3	48681053	48681053	+	Silent	SNP	C	C	T	rs9868809	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	54	91	0	0.613636	0	C|0.880;T|0.120	0.120	strong	CELSR3,NS,carcinoma,0,1	CELSR3	237	1	NM_001407	exon28	c.G8223A	p.G2741G	CAGGAGCCCAAAG	.	PASS	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50533841	50533841	+	Missense_Mutation	SNP	G	G	C	rs11101094	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	26	95	0	0.313253	0	G|0.907;C|0.093	0.093	strong	.	C10orf71	179	.	NM_001135196	exon3	c.G3251C	p.G1084A	CCCCTGGAGGACC	.	PASS	Atlas-SNP
CEP78	84131	hgsc.bcm.edu	37	9	80851350	80851350	+	Silent	SNP	G	G	C	rs10867166	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	23	62	0	0.621622	0	G|0.732;C|0.268	0.268	strong	.	CEP78	79	.	NM_001098802	exon1	c.G84C	p.S28S	GAACTCGGTGCCG	.	PASS	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	37	4	175899088	175899088	+	Missense_Mutation	SNP	G	G	T	rs146933346	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	56	130	2	0.294737	0.0153846	C|0.001;G|0.998;T|0.001	0.001	weak	ADAM29,NS,lymphoid_neoplasm,0,1	ADAM29	262	1	NM_001130703	exon4	c.G2412T	p.R804S	CCAGAGGCAACCT	.	scavenged	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19499560	19499560	+	Missense_Mutation	SNP	T	T	C	rs16862578	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	99	107	0	0.99	0	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	.	PASS	Atlas-SNP
SCN2A	6326	hgsc.bcm.edu	37	2	166152389	166152389	+	Missense_Mutation	SNP	G	G	A	rs17183814	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	44	113	0	0.389381	0	G|0.933;A|0.067	0.067	strong	.	SCN2A	589	.	NM_001040143	exon1	c.G56A	p.R19K	TTACCAGGGAATC	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	20089944	20089944	+	Silent	SNP	T	T	C	rs1442710	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	45	107	0	0.483871	0	T|0.724;C|0.276	0.276	strong	.	NAV2	255	.	NM_001244963	exon24	c.T5151C	p.N1717N	AGCAAATGTAAGT	.	PASS	Atlas-SNP
PRPH	5630	hgsc.bcm.edu	37	12	49691250	49691250	+	Silent	SNP	A	A	G	rs73112143	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	30	60	0	0.47619	0	A|0.778;G|0.222	0.222	strong	.	PRPH	26	.	NM_006262	exon6	c.A1107G	p.K369K	GCTAAAAGAGGAG	.	PASS	Atlas-SNP
GUCA1B	2979	hgsc.bcm.edu	37	6	42152583	42152583	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	4	74	0	0.0408163	0	.	.	none	.	GUCA1B	19	.	NM_002098	exon4	c.T573C	p.A191A	CTGCTGAGCGAGC	.	PASS	Atlas-SNP
SLC5A8	160728	hgsc.bcm.edu	37	12	101560328	101560328	+	Missense_Mutation	SNP	C	C	A	rs164365	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	60	107	0	0.46875	0	C|0.767;A|0.233	0.233	strong	.	SLC5A8	102	.	NM_145913	exon12	c.G1470T	p.M490I	GGTTGTCATCAAA	.	PASS	Atlas-SNP
ULK4	54986	hgsc.bcm.edu	37	3	41960006	41960006	+	Missense_Mutation	SNP	T	T	C	rs1716975	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	182	195	0	0.994536	0	T|0.321;C|0.679	0.679	strong	.	ULK4	150	.	NM_017886	exon7	c.A670G	p.I224V	CTGAAATACTTTC	.	PASS	Atlas-SNP
ESRP1	54845	hgsc.bcm.edu	37	8	95680229	95680229	+	Silent	SNP	C	C	T	rs1549466	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	84	141	0	0.509091	0	C|0.648;T|0.352	0.352	strong	ESRP1_ENST00000433389,NS,carcinoma,+2,2	ESRP1	148	2	NM_001122827	exon10	c.C984T	p.V328V	CATTGTCCGCATG	.	PASS	Atlas-SNP
FANCD2	2177	hgsc.bcm.edu	37	3	10138069	10138069	+	Silent	SNP	T	T	G	rs2272125	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	55	72	0	0.474138	0	T|0.743;G|0.257	0.257	strong	.	FANCD2	253	.	NM_001018115	exon42	c.T4098G	p.L1366L	GGAACTTTTAGTT	.	PASS	Atlas-SNP
GUF1	60558	hgsc.bcm.edu	37	4	44680660	44680660	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	16	44	0	0.470588	0	.	.	none	.	GUF1	72	.	NM_021927	exon1	c.G21A	p.R7R	GGGTCGGGGCTGG	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2833638	2833638	+	Missense_Mutation	SNP	C	C	T	rs370769167		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	22	126	0	0.241758	0	.	.	weak	.	ARSD	47	.	NM_001669	exon6	c.G959A	p.G320D	TATAAGCCATGCT	.	PASS	Atlas-SNP
PRICKLE1	144165	hgsc.bcm.edu	37	12	42854208	42854208	+	Silent	SNP	A	A	G	rs3747563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	184	155	0	1	0	A|0.686;G|0.314	0.314	strong	.	PRICKLE1	105	.	NM_001144882	exon8	c.T1899C	p.F633F	ATCAGAAAACTTG	.	PASS	Atlas-SNP
OR8D1	283159	hgsc.bcm.edu	37	11	124179835	124179835	+	Silent	SNP	C	C	T	rs4936918	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	100	223	0	0.510204	0	C|0.669;T|0.331	0.331	strong	.	OR8D1	53	.	NM_001002917	exon1	c.G828A	p.V276V	GTAGAACACAGAG	.	PASS	Atlas-SNP
BTN3A2	11118	hgsc.bcm.edu	37	6	26373507	26373507	+	Missense_Mutation	SNP	G	G	A	rs13216828	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	45	93	0	0.542169	0	G|0.922;A|0.078	0.078	strong	.	BTN3A2	44	.	NM_001197246	exon5	c.G920A	p.S307N	CAGAGAGCCTCCA	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82764425	82764425	+	Missense_Mutation	SNP	C	C	G	rs2877	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	387	197	383	0	0.509044	0	C|0.246;G|0.754	0.754	strong	.	PCLO	1506	.	NM_014510	exon3	c.G2441C	p.S814T	AATGGGCTGACTT	.	PASS	Atlas-SNP
PADI4	23569	hgsc.bcm.edu	37	1	17668609	17668609	+	Missense_Mutation	SNP	C	C	T	rs1748020	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	78	134	0	0.629032	0	C|0.939;T|0.061	0.061	strong	.	PADI4	70	.	NM_012387	exon7	c.C824T	p.S275F	ACACGTCCAACCT	.	PASS	Atlas-SNP
LRRC43	254050	hgsc.bcm.edu	37	12	122674758	122674758	+	Silent	SNP	G	G	A	rs4758651	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	150	121	0	1	0	G|0.305;N|0.003	.	strong	.	LRRC43	105	.	NM_001098519	exon5	c.G744A	p.R248R	CCTCCGGCACCTG	.	PASS	Atlas-SNP
HIST1H2AA	221613	hgsc.bcm.edu	37	6	25726621	25726621	+	Silent	SNP	C	C	T	rs9467583	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	75	96	0	0.513699	0	C|0.749;T|0.251	0.251	strong	HIST1H2AA,NS,malignant_melanoma,0,3	HIST1H2AA	34	3	NM_170745	exon1	c.G135A	p.G45G	GCCTGCCCCTATC	.	PASS	Atlas-SNP
PXDNL	137902	hgsc.bcm.edu	37	8	52325796	52325796	+	Silent	SNP	G	G	A	rs10504119	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	50	51	0	1	0	G|0.837;A|0.163	0.163	strong	.	PXDNL	414	.	NM_144651	exon15	c.C1818T	p.G606G	GTCATCGCCAGCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	358	187	319	0	0.522346	0	G|0.702;C|0.297	0.297	strong	.	TEP1	224	.	NM_007110	exon53	c.C7458G	p.I2486M	CCATAGGATCCCA	.	PASS	Atlas-SNP
CAPN13	92291	hgsc.bcm.edu	37	2	30975961	30975961	+	Missense_Mutation	SNP	G	G	T	rs62142192	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	79	161	0	0.484663	0	G|0.896;T|0.104	0.104	strong	.	CAPN13	70	.	NM_144575	exon10	c.C1045A	p.Q349K	TTATTTGGGACCA	.	PASS	Atlas-SNP
TTC39A	22996	hgsc.bcm.edu	37	1	51767352	51767352	+	Silent	SNP	G	G	A	rs41287290	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	39	89	0	0.46988	0	A|0.083;C|0.000;G|0.917	0.083	strong	TTC39A,colon,carcinoma,0,2	TTC39A	40	2	NM_001144832	exon12	c.C957T	p.F319F	GTGGTGGAACTGC	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17085447	17085447	+	Missense_Mutation	SNP	G	G	A	rs202225848		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	391	77	443	0	0.196931	0	G|0.996;A|0.004	0.004	weak	Q13209_HUMAN,NS,carcinoma,+1,3	.	.	3	NM_001271733	exon10	c.C1244T	p.P415L	GGAGCGGGAGCAA	.	PASS	Atlas-SNP
XRN1	54464	hgsc.bcm.edu	37	3	142078759	142078759	+	Missense_Mutation	SNP	C	C	T	rs73238159	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	16	40	0	0.516129	0	C|0.901;T|0.099	0.099	strong	.	XRN1	138	.	NM_001042604	exon30	c.G3409A	p.D1137N	GTACATCGGCTTC	.	PASS	Atlas-SNP
TMCC2	9911	hgsc.bcm.edu	37	1	205238530	205238530	+	Silent	SNP	C	C	T	rs1779411	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	39	40	0	1	0	C|0.784;T|0.216	0.216	strong	.	TMCC2	89	.	NM_014858	exon3	c.C1200T	p.G400G	TGGGGGCGGCGTG	.	PASS	Atlas-SNP
IQCJ-SCHIP1	100505385	hgsc.bcm.edu	37	3	159605510	159605510	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	3	114	0	0.0230769	0	.	.	none	SCHIP1,NS,carcinoma,0,2	IQCJ-SCHIP1	40	2	NM_001197113	exon8	c.C1238T	p.S413F	AGAGTTCTTCCTA	.	scavenged	Atlas-SNP
ANKRD34C	390616	hgsc.bcm.edu	37	15	79586361	79586361	+	Silent	SNP	T	T	C	rs8038778	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	87	80	0	1	0	T|0.315;C|0.685	0.685	strong	.	ANKRD34C	29	.	NM_001146341	exon2	c.T735C	p.P245P	TTTGCCTCAACTG	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60907446	60907446	+	Silent	SNP	T	T	C	rs2151513	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	91	103	0	1	0	T|0.223;G|0.000;C|0.777;A|0.000	0.777	strong	LAMA5,caecum,carcinoma,0,1	LAMA5	268	1	NM_005560	exon28	c.A3534G	p.E1178E	TGCCTGTTCGGCT	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225452983	225452983	+	Missense_Mutation	SNP	A	A	G	rs76767146	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	78	174	0	0.46988	0	A|0.953;G|0.047	0.047	strong	.	DNAH14	300	.	NM_001373	exon48	c.A7304G	p.N2435S	GCACCAATGTAAC	.	PASS	Atlas-SNP
SCARA5	286133	hgsc.bcm.edu	37	8	27729532	27729532	+	Silent	SNP	G	G	A	rs61737291	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	68	158	0	0.417178	0	G|0.870;A|0.130	0.130	strong	.	SCARA5	53	.	NM_173833	exon9	c.C1407T	p.I469I	GCGGAAGATGGTT	.	PASS	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136319600	136319600	+	Silent	SNP	G	G	A	rs34934621	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	47	78	0	0.566265	0	G|0.963;A|0.037	0.037	strong	.	ADAMTS13	113	.	NM_139027	exon24	c.G3108A	p.S1036S	ACGCTCGGTGGCC	.	PASS	Atlas-SNP
NEU4	129807	hgsc.bcm.edu	37	2	242758179	242758179	+	Silent	SNP	C	C	T	rs2293764	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	46	101	0	0.469388	0	C|0.819;T|0.181	0.181	strong	.	NEU4	39	.	NM_001167599	exon4	c.C1299T	p.S433S	CTACTCCGACCTG	.	PASS	Atlas-SNP
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45971081	45971081	+	Silent	SNP	C	C	T	rs79593866		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	19	185	0	0.117284	0	.	.	weak	KRTAP10-2,trunk,malignant_melanoma,-1,1	KRTAP10-2	21	1	NM_198693	exon1	c.G261A	p.P87P	GCAAGCCGGCTGG	.	scavenged	Atlas-SNP
SSC5D	284297	hgsc.bcm.edu	37	19	56011460	56011460	+	Silent	SNP	C	C	T	rs4801713	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	67	73	0	0.985294	0	A|0.000;C|0.582;G|0.000;T|0.417	0.417	strong	.	SSC5D	65	.	NM_001195267	exon10	c.C1983T	p.T661T	CCTAACCTCACAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	188	213	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
SIPA1L1	26037	hgsc.bcm.edu	37	14	72090809	72090809	+	Silent	SNP	G	G	A	rs113082664	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	35	80	0	0.411765	0	G|0.994;A|0.006	0.006	strong	.	SIPA1L1	219	.	NM_015556	exon4	c.G1674A	p.S558S	TCCGTCGACAGCC	.	PASS	Atlas-SNP
FBXL13	222235	hgsc.bcm.edu	37	7	102462636	102462636	+	Silent	SNP	T	T	C	rs10279449	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	35	66	0	0.479452	0	T|0.517;C|0.483	0.483	strong	.	FBXL13	65	.	NM_145032	exon19	c.A1869G	p.A623A	CTCCATTGCTGAG	.	PASS	Atlas-SNP
SLIT2	9353	hgsc.bcm.edu	37	4	20533613	20533613	+	Silent	SNP	C	C	G	rs150677598	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	128	286	0	0.483019	0	C|0.998;G|0.002	0.002	strong	SLIT2,NS,carcinoma,+2,1	SLIT2	290	1	NM_004787	exon17	c.C1620G	p.L540L	GCGTCTCAATAAT	.	PASS	Atlas-SNP
ZNF280A	129025	hgsc.bcm.edu	37	22	22869218	22869218	+	Missense_Mutation	SNP	T	T	C	rs362132	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	65	122	0	0.496183	0	T|0.469;C|0.531	0.531	strong	.	ZNF280A	67	.	NM_080740	exon2	c.A737G	p.N246S	GACTCATTTGCTC	.	PASS	Atlas-SNP
LRWD1	222229	hgsc.bcm.edu	37	7	102106306	102106306	+	Silent	SNP	A	A	G	rs11538919	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	41	101	0	0.450549	0	A|0.942;G|0.058	0.058	strong	.	LRWD1	41	.	NM_152892	exon2	c.A123G	p.K41K	CCCCAAACTCCTG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134646988	134646988	+	Missense_Mutation	SNP	C	C	T	rs4880433	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	63	175	0	0.425676	0	C|0.686;T|0.314	0.314	strong	.	TTC40	100	.	NM_001200049	exon50	c.G6991A	p.A2331T	TGTCTGCGACCAG	.	PASS	Atlas-SNP
NTNG2	84628	hgsc.bcm.edu	37	9	135102254	135102254	+	Silent	SNP	C	C	T	rs2149171	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	52	135	0	0.452174	0	C|0.408;T|0.592	0.592	strong	.	NTNG2	66	.	NM_032536	exon4	c.C876T	p.H292H	CCTGCACGCCAAC	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56489412	56489412	+	Silent	SNP	C	C	T	rs41271870	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	15	38	0	0.3125	0	C|0.988;T|0.012	0.012	strong	.	DST	1427	.	NM_001723	exon22	c.G3234A	p.R1078R	TCGAGTCCTTAGG	.	PASS	Atlas-SNP
ARHGEF3	50650	hgsc.bcm.edu	37	3	56763525	56763525	+	Silent	SNP	A	A	G	rs1009118	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	254	228	0	1	0	A|0.788;G|0.212	0.212	strong	.	ARHGEF3	128	.	NM_001128615	exon13	c.T1450C	p.L484L	CACACAAAACTGT	.	PASS	Atlas-SNP
CCDC36	339834	hgsc.bcm.edu	37	3	49294250	49294250	+	Missense_Mutation	SNP	C	C	A	rs13068038	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	34	96	0	0.369565	0	C|0.906;A|0.094	0.094	strong	.	CCDC36	77	.	NM_001135197	exon8	c.C1320A	p.D440E	GAAAGACAAGAAG	.	PASS	Atlas-SNP
CLASP1	23332	hgsc.bcm.edu	37	2	122104692	122104692	+	Silent	SNP	G	G	A	rs374603441		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	59	148	0	0.430657	0	.	.	weak	.	CLASP1	135	.	NM_015282	exon38	c.C4452T	p.S1484S	AAACACGCTGGCC	.	PASS	Atlas-SNP
GCSH	2653	hgsc.bcm.edu	37	16	81124275	81124275	+	Silent	SNP	G	G	A	rs8177876	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	138	288	0	0.466216	0	G|0.947;A|0.053	0.053	strong	.	GCSH	14	.	NM_004483	exon2	c.C159T	p.F53F	CTCTGTGAATTTA	.	PASS	Atlas-SNP
TM4SF5	9032	hgsc.bcm.edu	37	17	4684095	4684095	+	Silent	SNP	G	G	A	rs13520	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	121	138	1	0.975806	0.00724638	G|0.612;A|0.388	0.388	strong	.	TM4SF5	26	.	NM_003963	exon2	c.G189A	p.P63P	GTGTCCGGGGATT	.	PASS	Atlas-SNP
SEMA6B	10501	hgsc.bcm.edu	37	19	4558431	4558431	+	Silent	SNP	C	C	G	rs2304213	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	20	21	0	1	0	C|0.510;G|0.490	0.490	strong	SEMA6B,NS,carcinoma,0,2	SEMA6B	51	2	NM_032108	exon2	c.G39C	p.L13L	AAGCAGCAGGGCC	.	PASS	Atlas-SNP
IKZF3	22806	hgsc.bcm.edu	37	17	37922259	37922259	+	Silent	SNP	G	G	A	rs907092	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	178	166	0	1	0	G|0.660;A|0.340	0.340	strong	IKZF3,NS,carcinoma,0,1	IKZF3	79	1	NM_012481	exon8	c.C1314T	p.S438S	TTTGACGGAGTCT	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388728	1388728	+	Silent	SNP	C	C	T	rs9760383	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	6	87	5	0.25	0.0574713	C|0.500;T|0.500	0.500	weak	CRIPAK,colon,carcinoma,+2,4	CRIPAK	185	4	NM_175918	exon1	c.C429T	p.C143C	CCCATGCGGAGTG	.	scavenged	Atlas-SNP
SLC22A12	116085	hgsc.bcm.edu	37	11	64359286	64359286	+	Silent	SNP	C	C	T	rs3825016	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	31	42	0	0.96875	0	C|0.512;T|0.488	0.488	strong	.	SLC22A12	68	.	NM_144585	exon1	c.C258T	p.H86H	GCCCCACCAGTGC	.	PASS	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	37	3	130134492	130134492	+	Missense_Mutation	SNP	T	T	C	rs16827497	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	347	346	370	1	0.997118	0.0027027	T|0.539;C|0.461	0.461	strong	.	COL6A5	205	.	NM_153264	exon23	c.T4765C	p.S1589P	AAGGGGTCACAGG	.	PASS	Atlas-SNP
ARHGEF19	128272	hgsc.bcm.edu	37	1	16532803	16532803	+	Silent	SNP	G	G	A	rs221050	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	34	126	0	0.354167	0	G|0.786;A|0.214	0.214	strong	.	ARHGEF19	49	.	NM_153213	exon7	c.C1170T	p.S390S	GATGTAGGAGGCC	.	PASS	Atlas-SNP
RNF20	56254	hgsc.bcm.edu	37	9	104309445	104309445	+	Silent	SNP	T	T	C	rs2273976	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	104	183	0	0.507317	0	T|0.867;C|0.133	0.133	strong	.	RNF20	110	.	NM_019592	exon8	c.T921C	p.Y307Y	GGTGTATGGAGCG	.	PASS	Atlas-SNP
ANO2	57101	hgsc.bcm.edu	37	12	6030405	6030405	+	Missense_Mutation	SNP	A	A	G	rs3741903	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	38	101	0	0.481013	0	A|0.834;G|0.166	0.166	strong	.	ANO2	309	.	NM_020373	exon3	c.T323C	p.V108A	AGGTGCACCCCGC	.	PASS	Atlas-SNP
FRMD8	83786	hgsc.bcm.edu	37	11	65161129	65161129	+	Silent	SNP	C	C	T	rs2073800	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	16	58	0	0.313726	0	C|0.651;T|0.349	0.349	strong	.	FRMD8	28	.	NM_031904	exon4	c.C339T	p.D113D	CCCAGACGATGAC	.	PASS	Atlas-SNP
SEMA3F	6405	hgsc.bcm.edu	37	3	50222926	50222926	+	Missense_Mutation	SNP	T	T	A	rs1046956	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	311	168	313	0	0.540193	0	T|0.322;A|0.678	0.678	strong	.	SEMA3F	62	.	NM_004186	exon14	c.T1507A	p.L503M	CAGGAGTTGGAGG	.	PASS	Atlas-SNP
ATRNL1	26033	hgsc.bcm.edu	37	10	117228794	117228794	+	Silent	SNP	A	A	G	rs10885721	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	133	121	1	1	0.00826446	A|0.586;G|0.414	0.414	strong	.	ATRNL1	219	.	NM_207303	exon24	c.A3609G	p.T1203T	CATTACATTCTAT	.	PASS	Atlas-SNP
IMP4	92856	hgsc.bcm.edu	37	2	131100734	131100734	+	Missense_Mutation	SNP	G	G	A	rs11542411	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	29	29	31	0	1	0	G|0.895;A|0.105	0.105	strong	.	IMP4	35	.	NM_033416	exon2	c.G79A	p.E27K	GCCCAGGAGAGGA	.	PASS	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	37	6	17834213	17834213	+	Silent	SNP	T	T	C	rs4716190	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	71	115	0	0.467105	0	T|0.528;C|0.472	0.472	strong	.	KIF13A	276	.	NM_001105567	exon12	c.A1245G	p.R415R	TGTTTTTCTCAGC	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	37	1	248737167	248737167	+	Missense_Mutation	SNP	G	G	A	rs74984555	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	48	374	0	0.197531	0	G|0.500;A|0.500	0.500	strong	OR2T34,NS,carcinoma,+2,1	OR2T34	72	1	NM_001001821	exon1	c.C892T	p.R298C	TGTTGCGGAGACT	.	scavenged	Atlas-SNP
RECK	8434	hgsc.bcm.edu	37	9	36110063	36110063	+	Silent	SNP	T	T	A	rs10972727	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	72	138	0	0.39779	0	T|0.719;A|0.281	0.281	strong	.	RECK	73	.	NM_021111	exon15	c.T1875A	p.R625R	TGACCGTCGTACC	.	PASS	Atlas-SNP
MUC1	4582	hgsc.bcm.edu	37	1	155160747	155160747	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	5	234	0	0.0174825	0	.	.	none	MUC1_ENST00000368395,NS,neuroblastoma,0,2	MUC1	94	2	NM_001204286	exon4	c.C807T	p.V269V	GAAAGAGACCCCA	.	scavenged	Atlas-SNP
POU4F2	5458	hgsc.bcm.edu	37	4	147561147	147561147	+	Missense_Mutation	SNP	C	C	A	rs147517729	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	36	82	0	0.461538	0	C|0.992;A|0.008	0.008	strong	.	POU4F2	83	.	NM_004575	exon2	c.C417A	p.D139E	ACCGGACGCCACC	.	PASS	Atlas-SNP
ARHGAP12	94134	hgsc.bcm.edu	37	10	32128611	32128611	+	Missense_Mutation	SNP	A	A	G	rs2808096	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	27	34	0	0.442623	0	G|0.199;N|0.000	0.199	strong	.	ARHGAP12	79	.	NM_001270695	exon8	c.T1325C	p.F442S	TCAGGAAAGCAGG	.	PASS	Atlas-SNP
COL15A1	1306	hgsc.bcm.edu	37	9	101797679	101797679	+	Silent	SNP	C	C	G	rs35494947	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	85	76	0	1	0	C|0.992;G|0.008	0.008	strong	.	COL15A1	211	.	NM_001855	exon19	c.C2268G	p.L756L	CAAACTCTCCAGA	.	PASS	Atlas-SNP
ECHS1	1892	hgsc.bcm.edu	37	10	135184126	135184126	+	Missense_Mutation	SNP	G	G	A	rs1049951	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	83	83	0	1	0	G|0.189;A|0.811	0.811	strong	.	ECHS1	31	.	NM_004092	exon2	c.C224T	p.T75I	TCGAAGGTCTTCA	.	PASS	Atlas-SNP
MIA3	375056	hgsc.bcm.edu	37	1	222802926	222802926	+	Silent	SNP	C	C	T	rs3008620	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	159	173	0	1	0	C|0.150;T|0.850	0.850	strong	.	MIA3	167	.	NM_198551	exon4	c.C2364T	p.S788S	GGATAGCGAAAAA	.	PASS	Atlas-SNP
GATA3	2625	hgsc.bcm.edu	37	10	8100647	8100647	+	Silent	SNP	C	C	T	rs2229359	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	22	72	0	0.44	0	C|0.956;T|0.044	0.044	strong	.	GATA3	182	.	NM_002051	exon3	c.C621T	p.A207A	GACCGCCCTGGGT	.	PASS	Atlas-SNP
SELRC1	65260	hgsc.bcm.edu	37	1	53153432	53153432	+	Missense_Mutation	SNP	T	T	C	rs443751	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	260	91	319	1	0.35	0.0031348	T|0.745;C|0.255	0.255	strong	SELRC1,NS,carcinoma,0,1	SELRC1	11	1	NM_023077	exon3	c.A656G	p.K219R	TGTTCTTTGTGTA	.	PASS	Atlas-SNP
SH3TC2	79628	hgsc.bcm.edu	37	5	148407893	148407893	+	Missense_Mutation	SNP	C	C	A	rs6875902	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	13	55	0	0.276596	0	C|0.784;A|0.216	0.216	strong	.	SH3TC2	178	.	NM_024577	exon11	c.G1402T	p.A468S	TGGGGGCGAAGTT	.	PASS	Atlas-SNP
RPL7A	6130	hgsc.bcm.edu	37	9	136216882	136216882	+	Silent	SNP	G	G	A	rs7700	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	46	92	0	0.5	0	G|0.942;A|0.058	0.058	strong	.	RPL7A	9	.	NM_000972	exon4	c.G390A	p.T130T	CCCAACGAAGAGA	.	PASS	Atlas-SNP
TXNDC2	84203	hgsc.bcm.edu	37	18	9887433	9887433	+	Silent	SNP	A	A	G	rs2240907	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	33	113	0	0.336735	0	A|0.791;G|0.209	0.209	strong	.	TXNDC2	168	.	NM_001098529	exon2	c.A957G	p.E319E	CCCAGAAGAAGCC	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60908969	60908969	+	Missense_Mutation	SNP	T	T	C	rs13042941	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	82	91	0	1	0	T|0.272;C|0.728	0.728	strong	.	LAMA5	268	.	NM_005560	exon23	c.A2866G	p.T956A	CGCAGGTGGCCGA	.	PASS	Atlas-SNP
EBNA1BP2	10969	hgsc.bcm.edu	37	1	43636484	43636484	+	Silent	SNP	C	C	G	rs1049276	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	72	134	0	0.549618	0	C|0.799;G|0.201	0.201	strong	.	EBNA1BP2	37	.	NM_001159936	exon5	c.G555C	p.T185T	TCGCTTCGTAGGG	.	PASS	Atlas-SNP
ECE2	9718	hgsc.bcm.edu	37	3	183994447	183994447	+	Missense_Mutation	SNP	C	C	T	rs13063766	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	53	62	0	0.582418	0	C|0.977;T|0.023	0.023	strong	.	ECE2	303	.	NM_001100120	exon2	c.C218T	p.T73I	GGGTCACCTGCCC	.	PASS	Atlas-SNP
METTL2A	339175	hgsc.bcm.edu	37	17	60525113	60525113	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	274	134	268	1	0.489051	0.00373134	.	.	none	.	METTL2A	31	.	NM_181725	exon8	c.A968C	p.Y323S	GAGTTTACTTCTT	.	PASS	Atlas-SNP
ARHGAP42	143872	hgsc.bcm.edu	37	11	100847050	100847050	+	Silent	SNP	A	A	G	rs569270	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	74	196	0	0.422857	0	A|0.479;G|0.521	0.521	strong	.	ARHGAP42	32	.	NM_152432	exon20	c.A2118G	p.S706S	TGCTTCAGTCACT	.	PASS	Atlas-SNP
CASQ1	844	hgsc.bcm.edu	37	1	160162591	160162591	+	Splice_Site	SNP	G	G	C	rs145486953	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	51	117	0	0.354167	0	G|0.998;C|0.002	0.002	strong	.	CASQ1	55	.	NM_001231	exon2	c.280-1G>C	.	CCTCCAGTTAGCA	.	PASS	Atlas-SNP
CRISPLD2	83716	hgsc.bcm.edu	37	16	84883102	84883102	+	Silent	SNP	C	C	T	rs8061351	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	34	83	0	0.382022	0	C|0.398;T|0.602	0.602	strong	.	CRISPLD2	36	.	NM_031476	exon4	c.C471T	p.P157P	GGGGCCCATGTGC	.	PASS	Atlas-SNP
MAPKAPK2	9261	hgsc.bcm.edu	37	1	206905043	206905043	+	Silent	SNP	C	C	T	rs4073250	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	105	184	0	0.502392	0	C|0.820;T|0.180	0.180	strong	.	MAPKAPK2	45	.	NM_004759	exon8	c.C951T	p.T317T	CATCACCGAGTTT	.	PASS	Atlas-SNP
C16orf89	146556	hgsc.bcm.edu	37	16	5106184	5106184	+	Silent	SNP	C	C	T	rs741164	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	118	100	1	1	0.01	C|0.432;T|0.568	0.568	strong	.	C16orf89	64	.	NM_001098514	exon5	c.G633A	p.G211G	TGTGCACCCCCTC	.	PASS	Atlas-SNP
SGCG	6445	hgsc.bcm.edu	37	13	23824818	23824818	+	Missense_Mutation	SNP	G	G	A	rs17314986	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	60	101	0	0.508475	0	G|0.910;A|0.090	0.090	strong	SGCG,colon,carcinoma,+1,1	SGCG	64	1	NM_000231	exon4	c.G347A	p.R116H	ATGCGCGCAACTC	.	PASS	Atlas-SNP
LRRC33	375387	hgsc.bcm.edu	37	3	196388099	196388099	+	Missense_Mutation	SNP	G	G	C	rs62623661	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	129	224	0	0.620192	0	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	.	PASS	Atlas-SNP
KIAA1614	57710	hgsc.bcm.edu	37	1	180897569	180897569	+	Silent	SNP	C	C	T	rs3747958	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	242	191	1	1	0.0052356	C|0.600;T|0.400	0.400	strong	.	KIAA1614	75	.	NM_020950	exon4	c.C1065T	p.T355T	CAGGACCGTTGGT	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1056065	1056065	+	Silent	SNP	A	A	G	rs881768	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	21	57	0	0.567568	0	A|0.536;G|0.464	0.464	strong	.	ABCA7	174	.	NM_019112	exon32	c.A4239G	p.R1413R	CCACAGATACGGA	.	PASS	Atlas-SNP
AQP12A	375318	hgsc.bcm.edu	37	2	241631413	241631413	+	Missense_Mutation	SNP	T	T	G	rs71428454	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	36	204	0	0.327273	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
EPHA5	2044	hgsc.bcm.edu	37	4	66197804	66197804	+	Silent	SNP	C	C	T	rs7349683	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	41	87	0	0.476744	0	C|0.704;T|0.296	0.296	strong	.	EPHA5	315	.	NM_004439	exon17	c.G2895A	p.G965G	GTAGGCCCCAGAT	.	PASS	Atlas-SNP
ANKMY1	51281	hgsc.bcm.edu	37	2	241496770	241496770	+	Splice_Site	SNP	C	C	A	rs62621191	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	36	99	0	0.642857	0	C|0.883;A|0.117	0.117	strong	.	ANKMY1	112	.	.	.	.	.	TCCAACCTGCAAG	.	PASS	Atlas-SNP
TFAP2C	7022	hgsc.bcm.edu	37	20	55206401	55206401	+	Silent	SNP	C	C	G	rs140675668	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	89	149	0	0.508571	0	C|0.994;G|0.006	0.006	strong	.	TFAP2C	51	.	NM_003222	exon2	c.C189G	p.P63P	CCCTCCCTACCAG	.	PASS	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	37	1	111857951	111857951	+	Missense_Mutation	SNP	A	A	G	rs61756687	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	137	136	0	0.992754	0	A|0.900;G|0.100	0.100	strong	.	CHIA	115	.	NM_201653	exon6	c.A374G	p.K125R	TCATCAAATTCCT	.	PASS	Atlas-SNP
BPIFC	254240	hgsc.bcm.edu	37	22	32810378	32810378	+	Missense_Mutation	SNP	T	T	G	rs35856742	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	129	118	1	1	0.00847458	T|0.936;G|0.064	0.064	strong	.	.	.	.	NM_174932	exon15	c.A1436C	p.E479A	GATGTTTCATACT	.	PASS	Atlas-SNP
ZHX2	22882	hgsc.bcm.edu	37	8	123964431	123964431	+	Silent	SNP	G	G	A	rs3204141	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	66	112	0	0.5	0	G|0.767;A|0.233	0.233	strong	ZHX2,NS,carcinoma,0,1	ZHX2	106	1	NM_014943	exon3	c.G681A	p.S227S	CCTCTCGAGACTC	.	PASS	Atlas-SNP
PIK3C2B	5287	hgsc.bcm.edu	37	1	204399061	204399061	+	Silent	SNP	A	A	G	rs2271419	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	14	40	0	0.27451	0	A|0.866;G|0.134	0.134	strong	.	PIK3C2B	142	.	NM_002646	exon30	c.T4386C	p.P1462P	CACCTCAGGGGGT	.	PASS	Atlas-SNP
TOP1MT	116447	hgsc.bcm.edu	37	8	144392368	144392368	+	Missense_Mutation	SNP	G	G	A	rs2293925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	21	37	0	0.5	0	G|0.617;A|0.383	0.383	strong	.	TOP1MT	63	.	NM_052963	exon13	c.C1573T	p.R525W	GGAGCCGCCTCTT	.	PASS	Atlas-SNP
TSHZ1	10194	hgsc.bcm.edu	37	18	72997677	72997677	+	Silent	SNP	C	C	T	rs3826609	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	28	54	0	0.777778	0	C|0.779;T|0.221	0.221	strong	.	TSHZ1	104	.	NM_005786	exon2	c.C180T	p.S60S	CGACAGCGTCTCG	.	PASS	Atlas-SNP
QRICH2	84074	hgsc.bcm.edu	37	17	74275160	74275160	+	Silent	SNP	C	C	T	rs347675	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	13	49	0	0.216667	0	C|0.892;T|0.108	0.108	strong	QRICH2,NS,carcinoma,0,1	QRICH2	143	1	NM_032134	exon14	c.G4380A	p.T1460T	AAACACCGTGTAG	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501701	501701	+	Missense_Mutation	SNP	G	G	A	rs72970252	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	246	38	168	0	0.154472	0	G|0.865;A|0.135	0.135	strong	MADCAM1,NS,lymphoid_neoplasm,0,2	MADCAM1	29	2	NM_130760	exon4	c.G700A	p.D234N	CCTCCCGACACCA	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7880683	7880683	+	Missense_Mutation	SNP	T	T	G	rs10462020	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	68	143	0	0.515152	0	T|0.862;G|0.138	0.138	strong	.	PER3	95	.	NM_016831	exon15	c.T1916G	p.V639G	TCCATGTCCCACC	.	PASS	Atlas-SNP
ZFYVE28	57732	hgsc.bcm.edu	37	4	2275835	2275835	+	Silent	SNP	G	G	A	rs2051561	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	57	105	0	0.419118	0	G|0.575;A|0.425	0.425	strong	.	ZFYVE28	79	.	NM_020972	exon9	c.C2160T	p.F720F	GCCGTGGAACCTG	.	PASS	Atlas-SNP
CEACAM20	125931	hgsc.bcm.edu	37	19	45024581	45024581	+	Silent	SNP	C	C	G	rs12982449	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	87	102	0	1	0	C|0.617;G|0.383	0.383	strong	.	CEACAM20	31	.	NM_001102600	exon5	c.G957C	p.T319T	GGGCCCCGTGTCA	.	PASS	Atlas-SNP
REEP4	80346	hgsc.bcm.edu	37	8	21997738	21997738	+	Silent	SNP	A	A	T	rs35574275	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	74	120	0	0.524823	0	A|0.923;T|0.077	0.077	strong	REEP4,NS,carcinoma,0,1	REEP4	13	1	NM_025232	exon3	c.T129A	p.I43I	AAAAACAATCCAG	.	PASS	Atlas-SNP
LGALS9	3965	hgsc.bcm.edu	37	17	25958304	25958304	+	Missense_Mutation	SNP	G	G	A	rs3751093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	344	149	364	0	0.43314	0	G|0.811;A|0.189	0.189	strong	.	LGALS9	29	.	NM_009587	exon1	c.G13A	p.G5S	TTCAGCGGTTCCC	.	PASS	Atlas-SNP
LRRC4C	57689	hgsc.bcm.edu	37	11	40136049	40136049	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	295	133	265	0	0.450847	0	.	.	none	LRRC4C,NS,carcinoma,0,1	LRRC4C	190	1	NM_001258419	exon7	c.T1794C	p.Y598Y	TGAGTTATAGTGA	.	PASS	Atlas-SNP
PDZRN3	23024	hgsc.bcm.edu	37	3	73433369	73433369	+	Missense_Mutation	SNP	G	G	A	rs3205537	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	93	62	0	0.989362	0	G|0.729;A|0.271	0.271	strong	.	PDZRN3	196	.	NM_015009	exon10	c.C2348T	p.A783V	CCCTCCGCCGCTC	.	PASS	Atlas-SNP
TMEM259	91304	hgsc.bcm.edu	37	19	1010406	1010406	+	Silent	SNP	G	G	A	rs62131162	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	12	6	14	0	0.5	0	G|0.903;A|0.097	0.097	strong	.	.	.	.	NM_001033026	exon11	c.C1806T	p.G602G	AGGCCCGCCTACC	.	PASS	Atlas-SNP
FBXO25	26260	hgsc.bcm.edu	37	8	381344	381344	+	Missense_Mutation	SNP	C	C	G	rs28438773	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	48	106	0	0.48	0	C|0.860;G|0.140	0.140	strong	.	FBXO25	25	.	NM_183420	exon3	c.C138G	p.I46M	CAGTATCTTAAAT	.	PASS	Atlas-SNP
ARHGAP19	84986	hgsc.bcm.edu	37	10	99006083	99006083	+	Silent	SNP	G	G	A	rs13439	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	39	58	0	0.975	0	G|0.724;A|0.276	0.276	strong	ARHGAP19_ENST00000358531,caecum,carcinoma,-2,3	ARHGAP19	72	3	NM_032900	exon7	c.C939T	p.Y313Y	CCGAATGTAAGCA	.	PASS	Atlas-SNP
AARS2	57505	hgsc.bcm.edu	37	6	44269193	44269193	+	Silent	SNP	C	C	T	rs498512	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	26	43	0	0.481481	0	C|0.343;T|0.657	0.657	strong	.	AARS2	77	.	NM_020745	exon20	c.G2607A	p.K869K	AGTTTTCTTTGCA	.	PASS	Atlas-SNP
FUS	2521	hgsc.bcm.edu	37	16	31195279	31195279	+	Silent	SNP	C	C	T	rs1052352	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	62	104	0	0.529915	0	C|0.517;T|0.483	0.483	strong	.	FUS	52	.	NM_004960	exon4	c.C291T	p.Y97Y	CTCCTACCCTGGC	.	PASS	Atlas-SNP
RNF144B	255488	hgsc.bcm.edu	37	6	18457574	18457574	+	Silent	SNP	C	C	T	rs75403847	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	72	109	0	0.461538	0	C|0.999;T|0.001	0.001	strong	.	RNF144B	18	.	NM_182757	exon5	c.C520T	p.L174L	ATTGTCCTGCCAA	.	PASS	Atlas-SNP
MEPE	56955	hgsc.bcm.edu	37	4	88766969	88766969	+	Missense_Mutation	SNP	A	A	G	rs61731014	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	22	66	0	0.468085	0	A|0.983;G|0.017	0.017	strong	.	MEPE	86	.	NM_020203	exon4	c.A949G	p.I317V	AATACCATTGGAA	.	PASS	Atlas-SNP
OR13G1	441933	hgsc.bcm.edu	37	1	247835674	247835674	+	Missense_Mutation	SNP	G	G	A	rs28446289	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	74	138	0	0.528571	0	G|0.665;A|0.335	0.335	strong	.	OR13G1	78	.	NM_001005487	exon1	c.C670T	p.R224C	GGATACGGAGAAT	.	PASS	Atlas-SNP
C5orf22	55322	hgsc.bcm.edu	37	5	31534460	31534460	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	4	212	0	0.0147601	0	.	.	none	C5orf22,NS,malignant_melanoma,0,2	C5orf22	48	2	NM_018356	exon2	c.C163T	p.P55S	TCACATCCAGACC	.	scavenged	Atlas-SNP
FAM214A	56204	hgsc.bcm.edu	37	15	52901977	52901977	+	Silent	SNP	G	G	A	rs2414166	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	66	64	1	1	0.015625	G|0.561;A|0.439	0.439	strong	KIAA1370,NS,carcinoma,0,1	.	.	1	NM_019600	exon6	c.C1134T	p.A378A	ATGTTGGGCAATT	.	scavenged	Atlas-SNP
NLRP8	126205	hgsc.bcm.edu	37	19	56459458	56459458	+	Missense_Mutation	SNP	C	C	T	rs61195059	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	39	79	0	0.458824	0	C|0.925;T|0.075	0.075	strong	.	NLRP8	225	.	NM_176811	exon1	c.C190T	p.L64F	ACTGAGCTCAGTA	.	PASS	Atlas-SNP
SNX18	112574	hgsc.bcm.edu	37	5	53815066	53815066	+	Silent	SNP	C	C	A	rs2548613	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	43	89	0	0.447917	0	C|0.625;A|0.375	0.375	strong	.	SNX18	102	.	NM_052870	exon1	c.C1284A	p.I428I	CAAGATCGACGGC	.	PASS	Atlas-SNP
LMX1B	4010	hgsc.bcm.edu	37	9	129455587	129455587	+	Silent	SNP	G	G	C	rs13295990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	78	138	0	0.481481	0	G|0.573;C|0.427	0.427	strong	LMX1B_ENST00000355497,NS,carcinoma,+1,2	LMX1B	86	2	NM_001174146	exon4	c.G726C	p.S242S	CTCGTCGAAGCCT	.	PASS	Atlas-SNP
SLCO1B3	28234	hgsc.bcm.edu	37	12	21054369	21054369	+	Silent	SNP	G	G	A	rs3764006	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	104	142	0	0.990476	0	G|0.312;A|0.688	0.688	strong	.	SLCO1B3	151	.	NM_019844	exon15	c.G1833A	p.G611G	ACAAGGGGCTTGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	49	74	0	0.6125	0	C|0.714;T|0.286	0.286	strong	.	SLC26A8	95	.	NM_052961	exon3	c.G217A	p.V73M	TAAGCACGCATCG	.	PASS	Atlas-SNP
RGL3	57139	hgsc.bcm.edu	37	19	11526765	11526765	+	Missense_Mutation	SNP	G	G	T	rs167479	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	88	82	0	0.988764	0	G|0.596;T|0.404	0.404	strong	.	RGL3	100	.	NM_001035223	exon5	c.C485A	p.P162H	GCAGGGGGGTCTC	.	PASS	Atlas-SNP
CDK5RAP2	55755	hgsc.bcm.edu	37	9	123291036	123291036	+	Missense_Mutation	SNP	C	C	G	rs4836822	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	86	88	0	1	0	C|0.168;G|0.832	0.832	strong	.	CDK5RAP2	157	.	NM_018249	exon9	c.G865C	p.E289Q	TCTCTTCAAAGCT	.	PASS	Atlas-SNP
AKAP3	10566	hgsc.bcm.edu	37	12	4737042	4737042	+	Silent	SNP	G	G	A	rs7972737	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	229	184	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
ZBED4	9889	hgsc.bcm.edu	37	22	50280136	50280136	+	Silent	SNP	T	T	C	rs5770755	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	144	130	0	0.993103	0	T|0.382;C|0.618	0.618	strong	.	ZBED4	102	.	NM_014838	exon2	c.T2826C	p.A942A	CGAGGCTGCGAGC	.	PASS	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	37	2	231865144	231865144	+	Missense_Mutation	SNP	G	G	C	rs12105962	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	273	150	266	0	0.549451	0	G|0.771;C|0.229	0.229	strong	.	SPATA3	52	.	NM_139073	exon2	c.G365C	p.C122S	CCGCTTGCTGGCG	.	PASS	Atlas-SNP
LRRC48	83450	hgsc.bcm.edu	37	17	17896205	17896205	+	Missense_Mutation	SNP	C	C	T	rs4584886	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	62	127	0	0.421769	0	C|0.472;T|0.528	0.528	strong	.	LRRC48	49	.	NM_031294	exon6	c.C571T	p.R191W	GACTACCGGCGCA	.	PASS	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	37	1	204587240	204587240	+	Silent	SNP	G	G	A	rs3747632	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	93	90	0	0.989362	0	G|0.690;A|0.310	0.310	strong	.	LRRN2	81	.	NM_006338	exon3	c.C1881T	p.D627D	AGGACGGTCCCCT	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151970951	151970951	+	Missense_Mutation	SNP	C	C	T	rs2951027	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	338	10	411	0	0.0295858	0	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
MEDAG	84935	hgsc.bcm.edu	37	13	31495733	31495733	+	Silent	SNP	C	C	T	rs6563571	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	51	118	0	0.418033	0	C|0.908;T|0.092	0.092	strong	.	.	.	.	NM_032849	exon4	c.C537T	p.P179P	CTTCCCCCCAGGA	.	PASS	Atlas-SNP
FAM21B	55747	hgsc.bcm.edu	37	10	47909792	47909792	+	Missense_Mutation	SNP	C	C	T	rs201373575	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	8	141	1	0.0544218	0.0070922	C|0.949;T|0.051	0.051	strong	FAM21B_ENST00000358474,NS,carcinoma,0,2	FAM21B	31	2	NM_018232	exon11	c.C889T	p.R297W	CAGGATCGGCAAG	.	scavenged	Atlas-SNP
SLC4A7	9497	hgsc.bcm.edu	37	3	27478899	27478899	+	Silent	SNP	A	A	G	rs2029618	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	42	107	0	0.6	0	A|0.867;G|0.133	0.133	strong	.	SLC4A7	119	.	NM_001258379	exon4	c.T396C	p.Y132Y	CCATTCATATTCT	.	PASS	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	37	3	57475351	57475351	+	Missense_Mutation	SNP	T	T	G	rs6806444	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	247	220	0	1	0	T|0.370;G|0.630	0.630	strong	DNAH12,colon,carcinoma,0,1	DNAH12	182	1	NM_178504	exon12	c.A1399C	p.T467P	CCATAGTGTAATG	.	PASS	Atlas-SNP
KIAA1522	57648	hgsc.bcm.edu	37	1	33235626	33235626	+	Silent	SNP	G	G	A	rs3737995	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	31	91	0	0.563636	0	A|0.328;C|0.000;G|0.672	0.328	strong	.	KIAA1522	68	.	NM_020888	exon6	c.G846A	p.A282A	GGAGGCGGAGGCT	.	PASS	Atlas-SNP
ANKRD27	84079	hgsc.bcm.edu	37	19	33096816	33096816	+	Silent	SNP	C	C	T	rs7248273	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	92	221	0	0.440191	0	C|0.838;N|0.000	.	strong	ANKRD27,NS,NS,0,1	ANKRD27	86	1	NM_032139	exon24	c.G2418A	p.K806K	GAGGTCCTTCTTA	.	PASS	Atlas-SNP
CIITA	4261	hgsc.bcm.edu	37	16	11001914	11001914	+	Silent	SNP	G	G	A	rs2229321	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	49	112	0	0.445455	0	G|0.932;A|0.068	0.068	strong	.	CIITA	92	.	NM_000246	exon11	c.G2565A	p.A855A	GGCGGCGGGCCAA	.	PASS	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	37	19	11358799	11358799	+	Missense_Mutation	SNP	G	G	A	rs12978266	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	26	55	0	0.565217	0	G|0.480;A|0.520	0.520	strong	.	DOCK6	104	.	NM_020812	exon7	c.C749T	p.P250L	GGCTCTGGGCGGC	.	PASS	Atlas-SNP
CEP152	22995	hgsc.bcm.edu	37	15	49048705	49048705	+	Missense_Mutation	SNP	G	G	C	rs16961560	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	13	35	0	0.40625	0	G|0.933;C|0.067	0.067	strong	.	CEP152	145	.	NM_014985	exon20	c.C2740G	p.L914V	TTTCAAGCTCACT	.	PASS	Atlas-SNP
ALOX12	239	hgsc.bcm.edu	37	17	6902760	6902760	+	Missense_Mutation	SNP	A	A	G	rs1126667	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	68	183	0	0.503704	0	A|0.400;G|0.600	0.600	strong	ALOX12,colon,carcinoma,+1,1	ALOX12	49	1	NM_000697	exon6	c.A782G	p.Q261R	AGCTTCAGGCTCA	.	PASS	Atlas-SNP
GLTSCR2	29997	hgsc.bcm.edu	37	19	48255804	48255804	+	Silent	SNP	A	A	G	rs1042558	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	21	64	0	1	0	A|0.570;G|0.430	0.430	strong	.	GLTSCR2	45	.	NM_015710	exon6	c.A705G	p.A235A	CCAGGCACCCGCC	.	PASS	Atlas-SNP
FLT1	2321	hgsc.bcm.edu	37	13	28964198	28964198	+	Silent	SNP	C	C	T	rs17537350	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	44	108	0	0.536585	0	C|0.951;T|0.049	0.049	strong	FLT1_ENST00000541932,colon,carcinoma,-1,2	FLT1	393	2	NM_002019	exon13	c.G1704A	p.T568T	TCCTTCCGTCGGC	.	PASS	Atlas-SNP
STRBP	55342	hgsc.bcm.edu	37	9	125920376	125920376	+	Silent	SNP	G	G	A	rs803736	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	66	55	0	1	0	G|0.441;A|0.559	0.559	strong	.	STRBP	73	.	NM_018387	exon11	c.C960T	p.G320G	AATCTGGCCAAAG	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152188847	152188847	+	Missense_Mutation	SNP	A	A	G	rs145667921		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1455	164	337	0	0.112715	0	.	.	weak	HRNR,NS,carcinoma,0,1	HRNR	403	1	NM_001009931	exon3	c.T5258C	p.V1753A	CCAAAGACAGAAG	.	scavenged	Atlas-SNP
PYGO1	26108	hgsc.bcm.edu	37	15	55838976	55838976	+	Missense_Mutation	SNP	C	C	G	rs144876912	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	99	180	0	0.529412	0	C|0.998;G|0.002	0.002	strong	PYGO1,NS,carcinoma,+2,1	PYGO1	56	1	NM_015617	exon3	c.G505C	p.V169L	TGTTGACATTCTG	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	37	6	26468326	26468326	+	Missense_Mutation	SNP	G	G	A	rs3734542	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	101	154	0	0.474178	0	G|0.937;A|0.063	0.063	strong	BTN2A1_ENST00000265424,NS,carcinoma,-1,2	BTN2A1	118	2	NM_007049	exon8	c.G1133A	p.R378Q	TAGGCCGGGAGAG	.	PASS	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	37	20	57766113	57766113	+	Silent	SNP	G	G	A	rs148289392	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	14	49	0	0.518519	0	G|0.999;A|0.001	0.001	strong	.	ZNF831	287	.	NM_178457	exon1	c.G39A	p.A13A	TCCTGCGAGGGAC	.	PASS	Atlas-SNP
MRGPRX1	259249	hgsc.bcm.edu	37	11	18956196	18956196	+	Missense_Mutation	SNP	C	C	T	rs78179510	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	80	197	0	0.314961	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
AGGF1	55109	hgsc.bcm.edu	37	5	76359024	76359024	+	Missense_Mutation	SNP	C	C	A	rs34400049	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	189	175	0	0.984375	0	A|0.225;C|0.775	0.225	strong	.	AGGF1	71	.	NM_018046	exon14	c.C2092A	p.P698T	ACTAAGCCTCAAA	.	PASS	Atlas-SNP
TSTD2	158427	hgsc.bcm.edu	37	9	100364900	100364900	+	Missense_Mutation	SNP	A	A	C	rs145024955	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	111	252	0	0.486842	0	A|0.999;C|0.001	0.001	strong	.	TSTD2	42	.	NM_139246	exon10	c.T1402G	p.S468A	GGCCTGAAACTTT	.	PASS	Atlas-SNP
IPPK	64768	hgsc.bcm.edu	37	9	95396712	95396712	+	Missense_Mutation	SNP	G	G	A	rs2277170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	46	67	0	0.484211	0	G|0.961;A|0.039	0.039	strong	.	IPPK	34	.	NM_022755	exon11	c.C1126T	p.L376F	TGGAAAGGTCAAG	.	PASS	Atlas-SNP
UTP20	27340	hgsc.bcm.edu	37	12	101732670	101732670	+	Silent	SNP	C	C	T	rs11110755	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	184	192	0	0.989247	0	C|0.917;T|0.083	0.083	strong	.	UTP20	222	.	NM_014503	exon31	c.C3948T	p.S1316S	AATAAGCGCAGAA	.	PASS	Atlas-SNP
ANPEP	290	hgsc.bcm.edu	37	15	90347814	90347814	+	Missense_Mutation	SNP	G	G	A	rs17240268	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	31	43	0	0.525424	0	G|0.909;A|0.091	0.091	strong	ANPEP,NS,carcinoma,0,1	ANPEP	124	1	NM_001150	exon5	c.C932T	p.A311V	TGGCCCGCCGCAA	.	PASS	Atlas-SNP
DENND4C	55667	hgsc.bcm.edu	37	9	19341045	19341045	+	Silent	SNP	A	A	G	rs928128	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	142	176	0	0.986111	0	A|0.760;G|0.240	0.240	strong	DENND4C,colon,carcinoma,0,1	DENND4C	120	1	NM_017925	exon20	c.A2790G	p.A930A	TGATGCAGAAATT	.	PASS	Atlas-SNP
RAET1E	135250	hgsc.bcm.edu	37	6	150210685	150210685	+	Missense_Mutation	SNP	C	C	T	rs9383921	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	123	279	0	0.476744	0	C|0.608;T|0.392	0.392	strong	.	RAET1E	20	.	NM_139165	exon3	c.G421A	p.A141T	TGGTGGCGAACTG	.	PASS	Atlas-SNP
TMEM61	199964	hgsc.bcm.edu	37	1	55451850	55451850	+	Silent	SNP	G	G	A	rs148773188		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	25	111	0	0.409836	0	G|1.000;A|0.000	0.000	weak	.	TMEM61	22	.	NM_182532	exon2	c.G96A	p.T32T	CGGGACGCTCTGC	.	PASS	Atlas-SNP
SMPD1	6609	hgsc.bcm.edu	37	11	6412931	6412931	+	Silent	SNP	T	T	C	rs7951904	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	21	29	0	0.446809	0	T|0.864;C|0.136	0.136	strong	SMPD1_ENST00000342245,NS,carcinoma,+1,2	SMPD1	108	2	NM_000543	exon2	c.T636C	p.D212D	CTGGGATCATGAC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	67	110	0	0.632075	0	C|0.732;T|0.268	0.268	strong	.	PTPRF	172	.	NM_002840	exon20	c.C3591T	p.T1197T	GGAGACCTTTACC	.	PASS	Atlas-SNP
CEP350	9857	hgsc.bcm.edu	37	1	179989742	179989742	+	Missense_Mutation	SNP	G	G	C	rs2477120	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	102	120	0	0.536842	0	G|0.450;C|0.550	0.550	strong	.	CEP350	418	.	NM_014810	exon12	c.G2833C	p.E945Q	AAACCAGAAGGGC	.	PASS	Atlas-SNP
UGT1A7	54577	hgsc.bcm.edu	37	2	234590974	234590974	+	Silent	SNP	C	C	A	rs17863778	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	46	154	0	0.356589	0	C|0.567;A|0.433	0.433	strong	.	UGT1A7	74	.	NM_019077	exon1	c.C391A	p.R131R	AATGACCGAAAAT	.	PASS	Atlas-SNP
TEX40	25858	hgsc.bcm.edu	37	11	64071272	64071272	+	Missense_Mutation	SNP	G	G	C	rs117629442	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	66	97	0	0.52381	0	G|0.991;C|0.009	0.009	strong	.	.	.	.	NM_001039496	exon4	c.G460C	p.E154Q	CTCATGGAGAATG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9088330	9088330	+	Missense_Mutation	SNP	G	G	A	rs17000947	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	108	203	0	0.521739	0	G|0.811;A|0.189	0.189	strong	.	MUC16	4315	.	NM_024690	exon1	c.C3485T	p.T1162I	TTGGGAGTAGGAG	.	PASS	Atlas-SNP
RASGRF2	5924	hgsc.bcm.edu	37	5	80409526	80409526	+	Missense_Mutation	SNP	T	T	C	rs34193571	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	53	123	0	0.53	0	T|0.947;C|0.053	0.053	strong	.	RASGRF2	165	.	NM_006909	exon15	c.T2257C	p.S753P	TTGAACTCAAAGA	.	PASS	Atlas-SNP
POLE2	5427	hgsc.bcm.edu	37	14	50131846	50131846	+	Silent	SNP	G	G	T	rs3218791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	52	115	0	0.422764	0	G|0.766;T|0.234	0.234	strong	.	POLE2	36	.	NM_001197331	exon8	c.C612A	p.V204V	TAGTTGGACTGTT	.	PASS	Atlas-SNP
KNSTRN	90417	hgsc.bcm.edu	37	15	40685406	40685406	+	Missense_Mutation	SNP	A	A	T	rs8036457	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	272	137	268	0	0.503676	0	A|0.876;T|0.124	0.124	strong	.	.	.	.	NM_001142761	exon9	c.A835T	p.N279Y	TGGATGAATCATG	.	PASS	Atlas-SNP
GALR1	2587	hgsc.bcm.edu	37	18	74980553	74980553	+	Missense_Mutation	SNP	G	G	A	rs142216832	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	31	77	0	0.596154	0	G|0.993;A|0.007	0.007	strong	.	GALR1	53	.	NM_001480	exon3	c.G745A	p.V249I	CAGACAGTTCTGG	.	PASS	Atlas-SNP
COL16A1	1307	hgsc.bcm.edu	37	1	32127953	32127953	+	Silent	SNP	G	G	A	rs2271928	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	55	134	0	0.436508	0	G|0.511;A|0.489	0.489	strong	.	COL16A1	137	.	NM_001856	exon58	c.C3663T	p.D1221D	CTTGCCGTCCTTC	.	PASS	Atlas-SNP
TMEM63B	55362	hgsc.bcm.edu	37	6	44119676	44119676	+	Silent	SNP	A	A	G	rs3734697	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	67	135	0	0.440789	0	A|0.910;G|0.090	0.090	strong	TMEM63B,NS,carcinoma,0,1	TMEM63B	77	1	NM_018426	exon19	c.A1767G	p.P589P	CATCCCAGGCCTG	.	PASS	Atlas-SNP
GUCA1B	2979	hgsc.bcm.edu	37	6	42162388	42162388	+	Silent	SNP	A	A	G	rs3749921	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	77	176	0	0.371981	0	A|0.459;G|0.541	0.541	strong	.	GUCA1B	19	.	NM_002098	exon1	c.T171C	p.Y57Y	CTCTACATACTGG	.	PASS	Atlas-SNP
PCP2	126006	hgsc.bcm.edu	37	19	7698320	7698320	+	Silent	SNP	C	C	T	rs1862514	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	262	130	266	1	0.496183	0.0037594	C|0.738;T|0.262	0.262	strong	.	PCP2	6	.	NM_174895	exon1	c.G24A	p.T8T	TTCCTCCGTCTTC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179579025	179579025	+	Missense_Mutation	SNP	C	C	T	rs200116046	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224	3	202	0	0.0133929	0	.	.	weak	TTN_ENST00000356127,caecum,carcinoma,0,1	TTN	18412	1	NM_001267550	exon91	c.G26476A	p.V8826I	CGAGAACGGATAG	.	scavenged	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155244462	155244462	+	Silent	SNP	C	C	T	rs74430037	byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	50	44	0	0.980392	0	C|0.966;T|0.034	0.034	strong	.	DCHS2	594	.	NM_001142552	exon8	c.G4038A	p.K1346K	TTTTCCCTTCAGA	.	PASS	Atlas-SNP
ZNF582	147948	hgsc.bcm.edu	37	19	56895496	56895496	+	Silent	SNP	C	C	T	rs12978696	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	60	111	0	0.517241	0	C|0.865;T|0.135	0.135	strong	.	ZNF582	56	.	NM_144690	exon5	c.G1290A	p.K430K	AAAAGCCTTCCCA	.	PASS	Atlas-SNP
FAH	2184	hgsc.bcm.edu	37	15	80454615	80454615	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	3	96	0	0.032967	0	.	.	none	FAH,NS,carcinoma,+1,2	FAH	36	2	NM_000137	exon5	c.G392A	p.R131Q	CCTCTCGGCAGCA	.	scavenged	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76421443	76421443	+	Silent	SNP	G	G	A	rs1134541	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	39	83	0	0.438202	0	G|0.885;A|0.115	0.115	strong	.	DNAH17	347	.	NM_173628	exon80	c.C13125T	p.Y4375Y	GAGTCCGTACACG	.	PASS	Atlas-SNP
POC5	134359	hgsc.bcm.edu	37	5	75001582	75001582	+	Missense_Mutation	SNP	A	A	G	rs17672542	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	38	55	0	0.5	0	A|0.814;G|0.186	0.186	strong	.	POC5	82	.	NM_001099271	exon4	c.T254C	p.I85T	ACTTCTATTGCAG	.	PASS	Atlas-SNP
POLR1E	64425	hgsc.bcm.edu	37	9	37492679	37492679	+	Silent	SNP	G	G	T	rs3739576	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	101	194	0	0.480952	0	G|0.796;T|0.204	0.204	strong	.	POLR1E	28	.	NM_022490	exon5	c.G369T	p.A123A	ACTGGCGCTAGAG	.	PASS	Atlas-SNP
NPBWR1	2831	hgsc.bcm.edu	37	8	53852871	53852871	+	Missense_Mutation	SNP	A	A	T	rs33977775	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	22	31	0	0.536585	0	A|0.907;T|0.093	0.093	strong	.	NPBWR1	38	.	NM_005285	exon1	c.A404T	p.Y135F	ACCGCTACCTGGT	.	PASS	Atlas-SNP
PCDHA1	56147	hgsc.bcm.edu	37	5	140167463	140167463	+	Silent	SNP	C	C	T	rs3733710	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	33	171	0	0.402439	0	C|0.485;T|0.515	0.515	strong	PCDHA1_ENST00000504120,NS,carcinoma,0,2	PCDHA1	387	2	NM_031411	exon1	c.C1588T	p.L530L	CTGGAGCTGCTGC	.	PASS	Atlas-SNP
ANKUB1	389161	hgsc.bcm.edu	37	3	149485293	149485293	+	Missense_Mutation	SNP	T	T	C	rs7610425	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	123	173	0	0.508264	0	C|0.286;N|0.000	0.286	strong	.	ANKUB1	27	.	NM_001144960	exon5	c.A1156G	p.S386G	TGCTGCTTGCAGT	.	PASS	Atlas-SNP
EPHA3	2042	hgsc.bcm.edu	37	3	89448610	89448610	+	Missense_Mutation	SNP	A	A	T	rs150469112		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	33	93	0	0.568965	0	A|1.000;T|0.000	0.000	weak	.	EPHA3	501	.	NM_005233	exon7	c.A1574T	p.E525V	AGTTTGAGTTTGA	.	PASS	Atlas-SNP
BTN2A2	10385	hgsc.bcm.edu	37	6	26392515	26392515	+	Missense_Mutation	SNP	G	G	C	rs2072803	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	38	62	0	0.520548	0	G|0.911;C|0.089	0.089	strong	.	BTN2A2	87	.	NM_001197240	exon7	c.G763C	p.A255P	CCTTCAGCTTTCT	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81208515	81208515	+	Missense_Mutation	SNP	G	G	A	rs12596941	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	27	78	0	0.519231	0	G|0.789;A|0.211	0.211	strong	.	PKD1L2	361	.	NM_001076780	exon16	c.C2588T	p.A863V	CCGAGTGCCACCT	.	PASS	Atlas-SNP
OR4M1	441670	hgsc.bcm.edu	37	14	20249176	20249176	+	Missense_Mutation	SNP	G	G	A	rs2815960	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	498	237	490	0	0.475904	0	G|0.739;A|0.261	0.261	strong	.	OR4M1	104	.	NM_001005500	exon1	c.G695A	p.G232D	GCTCAGGTGAGAA	.	PASS	Atlas-SNP
OR5A2	219981	hgsc.bcm.edu	37	11	59189912	59189912	+	Missense_Mutation	SNP	G	G	A	rs1453547	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	45	92	0	0.46875	0	G|0.820;A|0.180	0.180	strong	.	OR5A2	35	.	NM_001001954	exon1	c.C515T	p.P172L	ATATAGGGCCCAC	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225211422	225211422	+	Missense_Mutation	SNP	T	T	C	rs75568712	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	115	243	0	0.46371	0	T|0.955;C|0.045	0.045	strong	.	DNAH14	300	.	NM_001373	exon11	c.T1213C	p.F405L	ACATTTTTCAAGT	.	PASS	Atlas-SNP
TBP	6908	hgsc.bcm.edu	37	6	170871103	170871103	+	Silent	SNP	G	G	A	rs149441883	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	6	106	1	0.0530973	0.00943396	G|0.998;A|0.002	0.002	strong	TBP,NS,carcinoma,0,2	TBP	58	2	NM_003194	exon3	c.G279A	p.Q93Q	GCAGCAGCAACAG	.	scavenged	Atlas-SNP
ST6GAL1	6480	hgsc.bcm.edu	37	3	186760520	186760520	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	23	184	0	0.117347	0	.	.	none	ST6GAL1,NS,carcinoma,+1,1	ST6GAL1	36	1	NM_003032	exon3	c.T29G	p.F10C	AAAAGTTCAGCTG	.	PASS	Atlas-SNP
ZHX3	23051	hgsc.bcm.edu	37	20	39832628	39832628	+	Missense_Mutation	SNP	T	T	C	rs17265513	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	63	126	0	0.428571	0	T|0.891;C|0.109	0.109	strong	.	ZHX3	78	.	NM_015035	exon3	c.A929G	p.N310S	GCTGCATTGTACG	.	PASS	Atlas-SNP
OR10G7	390265	hgsc.bcm.edu	37	11	123909342	123909342	+	Silent	SNP	G	G	A	rs470242	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	786	342	776	1	0.435115	0.00128866	G|0.759;A|0.241	0.241	strong	.	OR10G7	103	.	NM_001004463	exon1	c.C367T	p.L123L	TGGCCAGGTAGCG	.	PASS	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	37	14	23859610	23859610	+	Missense_Mutation	SNP	C	C	T	rs61741930	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	46	137	0	0.345865	0	C|0.931;T|0.069	0.069	strong	.	MYH6	274	.	NM_002471	exon26	c.G3388A	p.A1130T	CCCTGGCGGTGCG	.	PASS	Atlas-SNP
SIPA1L2	57568	hgsc.bcm.edu	37	1	232650163	232650163	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	26	60	0	0.393939	0	.	.	none	.	SIPA1L2	218	.	NM_020808	exon1	c.C923T	p.T308M	TCAGACGTGAACT	.	PASS	Atlas-SNP
SLC16A13	201232	hgsc.bcm.edu	37	17	6942108	6942108	+	Silent	SNP	C	C	T	rs11078663	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	44	103	0	0.419048	0	C|0.571;T|0.429	0.429	strong	.	SLC16A13	28	.	NM_201566	exon3	c.C981T	p.S327S	CTTCTCCGTGCTG	.	PASS	Atlas-SNP
BUD13	84811	hgsc.bcm.edu	37	11	116633825	116633825	+	Silent	SNP	C	C	T	rs918144	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	47	83	0	0.484536	0	C|0.470;T|0.530	0.530	strong	.	BUD13	41	.	NM_001159736	exon4	c.G480A	p.P160P	AGGATCCGGGGTG	.	PASS	Atlas-SNP
FSHR	2492	hgsc.bcm.edu	37	2	49191041	49191041	+	Missense_Mutation	SNP	C	C	T	rs6165	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	66	138	0	0.452055	0	C|0.525;T|0.475	0.475	strong	.	FSHR	164	.	NM_000145	exon10	c.G919A	p.A307T	CCCTAGCCTGAGT	.	PASS	Atlas-SNP
MANSC1	54682	hgsc.bcm.edu	37	12	12483275	12483275	+	Silent	SNP	G	G	A	rs1861676	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	82	180	0	0.473988	0	G|0.358;A|0.642	0.642	strong	MANSC1,NS,carcinoma,0,1	MANSC1	38	1	NM_018050	exon4	c.C982T	p.L328L	AAGTTAGGTTGGA	.	PASS	Atlas-SNP
ALX4	60529	hgsc.bcm.edu	37	11	44296946	44296946	+	Silent	SNP	C	C	T	rs11037928	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	87	189	0	0.460317	0	C|0.915;T|0.085	0.085	strong	ALX4,NS,carcinoma,-1,1	ALX4	58	1	NM_021926	exon2	c.G729A	p.A243A	TTCCCGCGCATAC	.	PASS	Atlas-SNP
SLC16A9	220963	hgsc.bcm.edu	37	10	61414176	61414176	+	Missense_Mutation	SNP	G	G	A	rs56370926	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	33	46	0	0.568965	0	G|0.965;A|0.035	0.035	strong	.	SLC16A9	58	.	NM_194298	exon5	c.C608T	p.A203V	TCTGGAGCTATTT	.	PASS	Atlas-SNP
KIF14	9928	hgsc.bcm.edu	37	1	200522566	200522566	+	Missense_Mutation	SNP	G	G	C	rs12120084	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	239	198	0	0.991701	0	G|0.707;C|0.293	0.293	strong	.	KIF14	156	.	NM_014875	exon30	c.C4897G	p.P1633A	CTGCTGGGGATGA	.	PASS	Atlas-SNP
RHOBTB3	22836	hgsc.bcm.edu	37	5	95091194	95091194	+	Silent	SNP	C	C	T	rs34898	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	279	134	262	0	0.480287	0	C|0.586;T|0.414	0.414	strong	.	RHOBTB3	43	.	NM_014899	exon6	c.C777T	p.Y259Y	ATTTTACAACCCC	.	PASS	Atlas-SNP
TERT	7015	hgsc.bcm.edu	37	5	1294086	1294086	+	Silent	SNP	C	C	T	rs2736098	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	8	22	0	0.470588	0	C|0.792;T|0.208	0.208	strong	.	TERT	2594	.	NM_001193376	exon2	c.G915A	p.A305A	GGGGCCCGCGTGG	.	PASS	Atlas-SNP
SCN1A	6323	hgsc.bcm.edu	37	2	166850872	166850872	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	21	182	0	0.13125	0	.	.	none	.	SCN1A	641	.	NM_001165963	exon25	c.A4636C	p.S1546R	TGATGCTTATGTC	.	PASS	Atlas-SNP
CPT1B	1375	hgsc.bcm.edu	37	22	51011348	51011348	+	Silent	SNP	G	G	A	rs34744246	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235	147	201	0	0.625532	0	G|0.973;A|0.027	0.027	strong	.	CPT1B	61	.	NM_001145135	exon11	c.C1308T	p.L436L	GAGGCTGAGGCTG	.	PASS	Atlas-SNP
PPP1R15A	23645	hgsc.bcm.edu	37	19	49379167	49379167	+	Silent	SNP	C	C	T	rs524	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	80	172	0	0.465116	0	C|0.647;T|0.353	0.353	strong	.	PPP1R15A	48	.	NM_014330	exon3	c.C1962T	p.A654A	TGTGGCCACACCT	.	PASS	Atlas-SNP
OR2J2	26707	hgsc.bcm.edu	37	6	29142064	29142064	+	Missense_Mutation	SNP	A	A	G	rs3130743	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	516	305	413	1	0.591085	0.00242131	A|0.601;G|0.399	0.399	strong	.	OR2J2	51	.	NM_030905	exon1	c.A652G	p.T218A	CTCACTACCTATG	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116397572	116397572	+	Silent	SNP	A	A	G	rs13223756	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	25	88	0	0.352113	0	A|0.817;G|0.183	0.183	strong	.	MET	412	.	NM_000245	exon7	c.A1944G	p.Q648Q	AACACAATACAGT	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4576203	4576203	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	26	141	0	0.191176	0	.	.	none	.	PELP1	102	.	NM_014389	exon16	c.G2083A	p.V695M	AGGGCACAGGGCC	.	PASS	Atlas-SNP
WDR34	89891	hgsc.bcm.edu	37	9	131397479	131397479	+	Silent	SNP	G	G	A	rs4837291	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	121	143	0	1	0	G|0.322;A|0.678	0.678	strong	.	WDR34	29	.	NM_052844	exon6	c.C873T	p.T291T	CCCGTCGGTGGCC	.	PASS	Atlas-SNP
SEMA6B	10501	hgsc.bcm.edu	37	19	4555079	4555079	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	9	63	0	0.12	0	.	.	none	.	SEMA6B	51	.	NM_032108	exon8	c.C591T	p.T197T	GAAGTCGGTAACA	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29812602	29812602	+	Silent	SNP	G	G	T	rs7070678	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	90	151	0	0.47619	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
GPR155	151556	hgsc.bcm.edu	37	2	175300997	175300997	+	Silent	SNP	G	G	A	rs6757461	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	85	152	0	0.469613	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
PEX14	5195	hgsc.bcm.edu	37	1	10596341	10596341	+	Silent	SNP	C	C	T	rs12375	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	117	244	0	0.58209	0	C|0.770;T|0.230	0.230	strong	.	PEX14	40	.	NM_004565	exon3	c.C156T	p.F52F	AGCATTCCTAAAG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9086318	9086318	+	Missense_Mutation	SNP	G	G	A	rs4520945	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	83	136	0	0.497006	0	G|0.812;A|0.188	0.188	strong	.	MUC16	4315	.	NM_024690	exon1	c.C5497T	p.L1833F	GAGTGAGAGAAAT	.	PASS	Atlas-SNP
PSPN	5623	hgsc.bcm.edu	37	19	6375831	6375831	+	Silent	SNP	G	G	A	rs2304198	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	135	143	0	1	0	G|0.609;A|0.391	0.391	strong	PSPN,colon,carcinoma,0,1	PSPN	5	1	NM_004158	exon1	c.C30T	p.S10S	CAGCAGGGAGCCC	.	PASS	Atlas-SNP
SLC5A7	60482	hgsc.bcm.edu	37	2	108608648	108608648	+	Missense_Mutation	SNP	A	A	G	rs1013940	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	81	159	0	0.430851	0	A|0.923;G|0.077	0.077	strong	.	SLC5A7	109	.	NM_021815	exon3	c.A265G	p.I89V	GCACCAATTGGAT	.	PASS	Atlas-SNP
CLRN2	645104	hgsc.bcm.edu	37	4	17528463	17528463	+	Missense_Mutation	SNP	G	G	A	rs2597791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	69	123	0	0.448052	0	G|0.948;A|0.052	0.052	strong	.	CLRN2	40	.	NM_001079827	exon3	c.G457A	p.A153T	GCCATCGCCAGCT	.	PASS	Atlas-SNP
MYH3	4621	hgsc.bcm.edu	37	17	10536018	10536018	+	Silent	SNP	G	G	A	rs2285479	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	220	219	0	0.995475	0	G|0.468;A|0.532	0.532	strong	.	MYH3	227	.	NM_002470	exon34	c.C4731T	p.I1577I	CTCGGCGATCTTT	.	PASS	Atlas-SNP
HIST1H3C	8352	hgsc.bcm.edu	37	6	26045905	26045905	+	Silent	SNP	G	G	C	rs3752417	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	182	122	0	1	0	G|0.908;C|0.092	0.092	strong	.	HIST1H3C	34	.	NM_003531	exon1	c.G267C	p.A89A	CTCTGCGGTGATG	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	62990971	62990971	+	Silent	SNP	C	C	T	rs12905981	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	41	35	0	0.97619	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
UBE2U	148581	hgsc.bcm.edu	37	1	64672478	64672478	+	Silent	SNP	A	A	G	rs35112334	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	87	265	0	0.386667	0	A|0.982;G|0.018	0.018	strong	.	UBE2U	16	.	NM_152489	exon3	c.A180G	p.T60T	TTTTACATCGGAG	.	PASS	Atlas-SNP
EMC1	23065	hgsc.bcm.edu	37	1	19566881	19566881	+	Silent	SNP	C	C	T	rs12084825	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	147	188	0	1	0	C|0.864;T|0.136	0.136	strong	.	.	.	.	NM_001271427	exon7	c.G696A	p.E232E	GACAGCCTCATCC	.	PASS	Atlas-SNP
PTK2B	2185	hgsc.bcm.edu	37	8	27255263	27255263	+	Silent	SNP	A	A	G	rs1045512	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	79	171	0	0.496855	0	A|0.641;G|0.359	0.359	strong	PTK2B_ENST00000544172,NS,carcinoma,0,1	PTK2B	304	1	NM_173174	exon7	c.A162G	p.K54K	TGGGAAAAACTTC	.	PASS	Atlas-SNP
ITPKB	3707	hgsc.bcm.edu	37	1	226924642	226924642	+	Missense_Mutation	SNP	C	C	T	rs3754415	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	32	58	0	0.666667	0	C|0.795;T|0.205	0.205	strong	ITPKB_ENST00000429204,NS,carcinoma,0,1	ITPKB	158	1	NM_002221	exon2	c.G518A	p.R173H	GGCGAGCGAGCCC	.	PASS	Atlas-SNP
CTNNA2	1496	hgsc.bcm.edu	37	2	80136811	80136811	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	4	205	0	0.0243902	0	.	.	none	CTNNA2_ENST00000466387,colon,carcinoma,+1,4	CTNNA2	462	4	NM_001164883	exon7	c.C944T	p.A315V	GCGCAGCGCTGAT	.	scavenged	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65271780	65271780	+	Silent	SNP	G	G	A	rs2277503	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	72	129	0	0.483221	0	G|0.945;A|0.055	0.055	strong	.	SPTB	378	.	NM_001024858	exon2	c.C177T	p.T59T	CGTGAAGGTCTTT	.	PASS	Atlas-SNP
FAM64A	54478	hgsc.bcm.edu	37	17	6348642	6348642	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	3	128	0	0.0241935	0	.	.	none	FAM64A,NS,carcinoma,0,1	FAM64A	20	1	NM_019013	exon2	c.G212A	p.R71H	GGAAACGCCTGGA	.	scavenged	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30888169	30888169	+	Silent	SNP	G	G	A	rs2517468	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	74	100	0	0.513889	0	G|0.731;A|0.269	0.269	strong	VARS2,NS,carcinoma,0,1	VARS2	60	1	NM_001167734	exon14	c.G1443A	p.L481L	GGGCCTGTTCCGG	.	PASS	Atlas-SNP
EML4	27436	hgsc.bcm.edu	37	2	42515437	42515437	+	Missense_Mutation	SNP	A	A	G	rs28651764	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	59	49	0	1	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
NIPSNAP3B	55335	hgsc.bcm.edu	37	9	107533175	107533175	+	Missense_Mutation	SNP	C	C	G	rs3739741	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	76	186	0	0.466258	0	C|0.851;G|0.149	0.149	strong	NIPSNAP3B,NS,carcinoma,0,1	NIPSNAP3B	22	1	NM_018376	exon4	c.C476G	p.A159G	GGCCAGCTCTGTG	.	PASS	Atlas-SNP
IMPA2	3613	hgsc.bcm.edu	37	18	11999115	11999115	+	Silent	SNP	T	T	C	rs11545506	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	47	192	0	0.256831	0	T|0.854;C|0.146	0.146	strong	IMPA2,NS,carcinoma,0,1	IMPA2	27	1	NM_014214	exon2	c.T159C	p.L53L	AGATCTTGTGACA	.	PASS	Atlas-SNP
SLC12A8	84561	hgsc.bcm.edu	37	3	124896668	124896668	+	Missense_Mutation	SNP	G	G	A	rs2993631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	53	101	0	0.46087	0	G|0.964;A|0.036	0.036	strong	.	SLC12A8	81	.	NM_024628	exon5	c.C541T	p.R181C	GGAGGCGGATTAT	.	PASS	Atlas-SNP
KIAA1239	57495	hgsc.bcm.edu	37	4	37445885	37445885	+	Silent	SNP	T	T	C	rs11724784	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	52	131	0	0.472727	0	T|0.812;C|0.188	0.188	strong	.	KIAA1239	79	.	NM_001144990	exon7	c.T2275C	p.L759L	ACCATCTTAGCAG	.	PASS	Atlas-SNP
ADAM7	8756	hgsc.bcm.edu	37	8	24359068	24359068	+	Silent	SNP	G	G	A	rs13277171	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	98	115	0	1	0	G|0.743;A|0.257	0.257	strong	ADAM7,colon,carcinoma,0,1	ADAM7	165	1	NM_003817	exon20	c.G2187A	p.L729L	AATCCTGCCAGAA	.	PASS	Atlas-SNP
IDUA	3425	hgsc.bcm.edu	37	4	995305	995305	+	Silent	SNP	T	T	C	rs6815946	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	41	64	0	0.414141	0	T|0.821;C|0.179	0.179	strong	.	IDUA	33	.	NM_000203	exon5	c.T543C	p.N181N	GTGGAATGAGCCA	.	PASS	Atlas-SNP
TTL	150465	hgsc.bcm.edu	37	2	113277949	113277949	+	Silent	SNP	T	T	C	rs62157538	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	122	221	0	0.523605	0	T|0.838;C|0.162	0.162	strong	TTL_ENST00000233336,colon,carcinoma,0,1	TTL	27	1	NM_153712	exon6	c.T966C	p.D322D	GGTCGATGAGGAG	.	PASS	Atlas-SNP
MAGEA1	4100	hgsc.bcm.edu	37	X	152482796	152482796	+	Missense_Mutation	SNP	C	C	T	rs2008144	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	181	333	2	1	0.00600601	0|0.027;T|0.150	0.150	strong	.	MAGEA1	57	.	NM_004988	exon3	c.G215A	p.R72Q	CTCTGTCGAGTGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	18	51	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
MFHAS1	9258	hgsc.bcm.edu	37	8	8654898	8654898	+	Silent	SNP	C	C	T	rs3827812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	75	167	0	0.457317	0	C|0.876;T|0.124	0.124	strong	MFHAS1,NS,carcinoma,0,1	MFHAS1	58	1	NM_004225	exon2	c.G3102A	p.P1034P	CACAGTCGGCGTG	.	PASS	Atlas-SNP
SPATA5	166378	hgsc.bcm.edu	37	4	123855513	123855513	+	Missense_Mutation	SNP	T	T	C	rs55643281	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	100	175	0	0.487805	0	T|0.987;C|0.013	0.013	strong	.	SPATA5	62	.	NM_145207	exon5	c.T767C	p.I256T	AACCAATTGATGA	.	PASS	Atlas-SNP
ZNF708	7562	hgsc.bcm.edu	37	19	21477379	21477379	+	Missense_Mutation	SNP	C	C	T	rs504280	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	83	125	0	0.528662	0	C|0.780;T|0.220	0.220	strong	.	ZNF708	66	.	NM_021269	exon4	c.G389A	p.R130Q	ACACACCGGTTAA	.	PASS	Atlas-SNP
DDIT4L	115265	hgsc.bcm.edu	37	4	101109161	101109161	+	Silent	SNP	G	G	C	rs3749604	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	40	92	0	0.470588	0	G|0.813;C|0.187	0.187	strong	DDIT4L,NS,carcinoma,-1,1	DDIT4L	33	1	NM_145244	exon3	c.C255G	p.T85T	TCTCTGGGTCAGT	.	PASS	Atlas-SNP
TOR1AIP1	26092	hgsc.bcm.edu	37	1	179876988	179876988	+	Missense_Mutation	SNP	C	C	G	rs609521	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	162	130	0	0.987805	0	C|0.442;G|0.557	0.557	strong	.	TOR1AIP1	58	.	NM_001267578	exon7	c.C830G	p.P277R	AGCAACCTTCAGT	.	PASS	Atlas-SNP
CCDC86	79080	hgsc.bcm.edu	37	11	60610056	60610056	+	Missense_Mutation	SNP	G	G	C	rs2074421	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	53	93	0	0.477477	0	G|0.909;C|0.091	0.091	strong	.	CCDC86	24	.	NM_024098	exon1	c.G459C	p.Q153H	GCATCAGCTACCG	.	PASS	Atlas-SNP
MYLK	4638	hgsc.bcm.edu	37	3	123411589	123411589	+	Silent	SNP	G	G	A	rs40305	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	35	96	0	0.346535	0	G|0.525;A|0.475	0.475	strong	.	MYLK	224	.	NM_053025	exon19	c.C3558T	p.T1186T	ATCCACGGTGACT	.	PASS	Atlas-SNP
LHX2	9355	hgsc.bcm.edu	37	9	126783433	126783433	+	Silent	SNP	G	G	C	rs1042486	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	29	97	0	0.386667	0	G|0.625;C|0.375	0.375	strong	.	LHX2	30	.	NM_004789	exon4	c.G783C	p.P261P	ATACCCGAGCAGC	.	PASS	Atlas-SNP
NCAN	1463	hgsc.bcm.edu	37	19	19351431	19351431	+	Silent	SNP	G	G	A	rs2229851	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	27	85	0	0.3375	0	G|0.956;A|0.044	0.044	strong	.	NCAN	277	.	NM_004386	exon12	c.G3429A	p.T1143T	AAACACGTGGATC	.	PASS	Atlas-SNP
AGO4	192670	hgsc.bcm.edu	37	1	36316571	36316571	+	Silent	SNP	A	A	C	rs4652895	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	132	170	0	0.992481	0	A|0.436;C|0.564	0.564	strong	.	.	.	.	NM_017629	exon17	c.A2394C	p.S798S	TCGCTCAGTCTCT	.	PASS	Atlas-SNP
ZNF354A	6940	hgsc.bcm.edu	37	5	178139355	178139355	+	Silent	SNP	T	T	C	rs113805764	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	26	195	0	0.181818	0	T|0.988;C|0.012	0.012	strong	.	ZNF354A	74	.	NM_005649	exon5	c.A1524G	p.S508S	ACTAAGTGATGAG	.	PASS	Atlas-SNP
SRRM5	100170229	hgsc.bcm.edu	37	19	44118353	44118353	+	Missense_Mutation	SNP	G	G	A	rs2302421	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	69	97	0	0.518797	0	G|0.833;A|0.167	0.167	strong	.	SRRM5	38	.	NM_001145641	exon1	c.G2080A	p.D694N	CAAGCCGACGCCA	.	PASS	Atlas-SNP
USP42	84132	hgsc.bcm.edu	37	7	6175526	6175526	+	Missense_Mutation	SNP	C	C	T	rs61757573	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	69	176	0	0.405882	0	C|0.999;T|0.001	0.001	strong	.	USP42	138	.	NM_032172	exon4	c.C497T	p.A166V	CCCAGGCACTCAG	.	PASS	Atlas-SNP
WBSCR28	135886	hgsc.bcm.edu	37	7	73280020	73280020	+	Silent	SNP	C	C	T	rs1136647	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	101	231	0	0.419087	0	C|0.529;T|0.471	0.471	strong	WBSCR28,NS,carcinoma,+1,1	WBSCR28	24	1	NM_182504	exon3	c.C615T	p.T205T	CATCACCTGGACC	.	PASS	Atlas-SNP
DECR2	26063	hgsc.bcm.edu	37	16	461443	461443	+	Silent	SNP	C	C	T	rs138044046	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	60	94	0	0.566038	0	C|0.997;T|0.003	0.003	strong	.	DECR2	47	.	NM_020664	exon8	c.C744T	p.S248S	CCACAGCGTGCTC	.	PASS	Atlas-SNP
KIAA1432	57589	hgsc.bcm.edu	37	9	5762600	5762600	+	Silent	SNP	G	G	A	rs3739646	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	59	119	0	0.59596	0	G|0.960;A|0.040	0.040	strong	.	KIAA1432	97	.	NM_001135920	exon18	c.G2052A	p.R684R	GCAGAGGGACAGG	.	PASS	Atlas-SNP
AAGAB	79719	hgsc.bcm.edu	37	15	67528374	67528374	+	Missense_Mutation	SNP	T	T	G	rs7173826	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	83	169	0	0.488235	0	T|0.662;G|0.338	0.338	strong	.	AAGAB	24	.	NM_024666	exon4	c.A394C	p.I132L	GTTTGATGCACCA	.	PASS	Atlas-SNP
LRRC56	115399	hgsc.bcm.edu	37	11	551708	551708	+	Missense_Mutation	SNP	C	C	T	rs113929032	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	56	92	0	0.538462	0	C|0.996;T|0.004	0.004	strong	.	LRRC56	23	.	NM_198075	exon10	c.C854T	p.T285M	CTGAGACGCAGTC	.	PASS	Atlas-SNP
LRIT3	345193	hgsc.bcm.edu	37	4	110791361	110791361	+	Missense_Mutation	SNP	G	G	A	rs2347131	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	58	147	0	0.446154	0	G|0.794;A|0.206	0.206	strong	LRIT3_ENST00000379920,colon,carcinoma,0,2	LRIT3	107	2	NM_198506	exon4	c.G1456A	p.A486T	AATGCCGCAATAG	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51613177	51613177	+	Silent	SNP	C	C	T	rs765525	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	90	128	0	0.566038	0	T|0.317;G|0.011	0.317	strong	.	PKHD1	927	.	NM_170724	exon58	c.G9237A	p.A3079A	GATTCCCGCCACC	.	PASS	Atlas-SNP
PIGQ	9091	hgsc.bcm.edu	37	16	624101	624101	+	Silent	SNP	G	G	A	rs61753370	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	34	72	0	0.596491	0	G|0.978;A|0.022	0.022	strong	PIGQ,NS,carcinoma,0,1	PIGQ	43	1	NM_148920	exon2	c.G27A	p.T9T	CCCCACGTGCTGC	.	PASS	Atlas-SNP
CYP17A1	1586	hgsc.bcm.edu	37	10	104596981	104596981	+	Silent	SNP	G	G	A	rs6162	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	63	141	0	0.456522	0	G|0.600;A|0.400	0.400	strong	.	CYP17A1	48	.	NM_000102	exon1	c.C138T	p.H46H	ATGGCCGTGTCTG	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104171523	104171523	+	Silent	SNP	A	A	G	rs45455902	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	40	73	0	0.444444	0	A|0.952;G|0.048	0.048	strong	.	ZNF189	79	.	NM_003452	exon3	c.A1473G	p.K491K	TGGGAAAAGCTTC	.	PASS	Atlas-SNP
HAO2	51179	hgsc.bcm.edu	37	1	119923724	119923724	+	Silent	SNP	T	T	C	rs2275607	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	105	133	1	1	0.0075188	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
EEA1	8411	hgsc.bcm.edu	37	12	93172994	93172994	+	Missense_Mutation	SNP	G	G	A	rs138526188	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	139	260	0	0.53876	0	G|1.000;A|0.000	0.000	strong	.	EEA1	104	.	NM_003566	exon25	c.C3551T	p.A1184V	ACAGCTGCCTTCA	.	PASS	Atlas-SNP
ARMC3	219681	hgsc.bcm.edu	37	10	23295903	23295903	+	Missense_Mutation	SNP	T	T	C	rs11013233	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	30	48	0	0.508475	0	T|0.970;C|0.030	0.030	strong	.	ARMC3	102	.	NM_173081	exon14	c.T1822C	p.S608P	AGTAAATCTTACG	.	PASS	Atlas-SNP
CCDC88B	283234	hgsc.bcm.edu	37	11	64110668	64110668	+	Silent	SNP	G	G	A	rs574835	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	12	28	0	0.571429	0	G|0.738;A|0.262	0.262	strong	.	CCDC88B	89	.	NM_032251	exon11	c.G1080A	p.S360S	GCTCTCGGGGGTG	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32064726	32064726	+	Missense_Mutation	SNP	T	T	C	rs1150752	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	316	117	376	0	0.370253	0	T|0.967;C|0.033	0.033	strong	.	TNXB	553	.	NM_019105	exon3	c.A904G	p.T302A	CGCCAGTGTAGCC	.	PASS	Atlas-SNP
BRAT1	221927	hgsc.bcm.edu	37	7	2583328	2583328	+	Silent	SNP	C	C	T	rs61753095	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	49	112	0	0.480392	0	C|0.871;T|0.129	0.129	strong	BRAT1,NS,carcinoma,0,1	BRAT1	57	1	NM_152743	exon5	c.G699A	p.T233T	GGCTTCCGTCCAG	.	PASS	Atlas-SNP
AMOTL1	154810	hgsc.bcm.edu	37	11	94602414	94602414	+	Missense_Mutation	SNP	C	C	T	rs11020968	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	72	174	0	0.489796	0	C|0.899;T|0.101	0.101	strong	.	AMOTL1	95	.	NM_130847	exon12	c.C2540T	p.P847L	TGCTGCCACCCCC	.	PASS	Atlas-SNP
FBXO18	84893	hgsc.bcm.edu	37	10	5948352	5948352	+	Silent	SNP	G	G	A	rs138692839	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	78	157	0	0.557143	0	G|0.998;A|0.002	0.002	strong	.	FBXO18	108	.	NM_032807	exon4	c.G663A	p.T221T	CAGTACGTCTCGG	.	PASS	Atlas-SNP
DDN	23109	hgsc.bcm.edu	37	12	49391682	49391682	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	36	72	0	0.5	0	.	.	none	.	DDN	54	.	NM_015086	exon2	c.A977G	p.N326S	CCACTGTTCAGGT	.	PASS	Atlas-SNP
PCDHB16	57717	hgsc.bcm.edu	37	5	140563579	140563579	+	Missense_Mutation	SNP	C	C	T	rs61745657	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	97	108	0	0.82906	0	C|0.878;T|0.122	0.122	strong	.	PCDHB16	159	.	NM_020957	exon1	c.C1445T	p.T482I	CAGGCACCAACGC	.	PASS	Atlas-SNP
DGKQ	1609	hgsc.bcm.edu	37	4	954885	954885	+	Silent	SNP	G	G	T	rs77382558	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	82	146	0	0.550336	0	G|0.965;T|0.035	0.035	strong	.	DGKQ	29	.	NM_001347	exon22	c.C2679A	p.P893P	GACCCAGGGCTCC	.	PASS	Atlas-SNP
WRNIP1	56897	hgsc.bcm.edu	37	6	2784571	2784571	+	Silent	SNP	G	G	A	rs160703	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	103	103	0	0.547872	0	G|0.824;A|0.176	0.176	strong	.	WRNIP1	39	.	NM_020135	exon6	c.G1656A	p.P552P	AGACCCGTCTGCG	.	PASS	Atlas-SNP
GLOD4	51031	hgsc.bcm.edu	37	17	663468	663468	+	Missense_Mutation	SNP	G	G	T	rs75027378	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	32	69	0	0.5	0	G|0.978;T|0.022	0.022	strong	.	GLOD4	12	.	NM_016080	exon9	c.C842A	p.A281E	TTATCTGCTGCCA	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28506872	28506872	+	Silent	SNP	A	A	G	rs149271	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	66	136	0	0.559322	0	A|0.711;G|0.289	0.289	strong	.	APOBR	89	.	NM_018690	exon2	c.A510G	p.E170E	CAGAGAAGAGAGG	.	PASS	Atlas-SNP
SPTY2D1	144108	hgsc.bcm.edu	37	11	18633897	18633897	+	Missense_Mutation	SNP	T	T	C	rs35411689	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	90	167	0	0.494505	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
USP17L10	100287144	hgsc.bcm.edu	37	4	9212676	9212676	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	38	0	0	1	.	.	.	none	.	.	.	.	NM_001256852	exon1	c.G294A	p.L98L	GTGCCTGACATAC	.	PASS	Atlas-SNP
SPNS3	201305	hgsc.bcm.edu	37	17	4391132	4391132	+	Silent	SNP	C	C	T	rs2291743	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	71	142	0	0.449367	0	C|0.793;T|0.207	0.207	strong	SPNS3,NS,carcinoma,0,1	SPNS3	52	1	NM_182538	exon12	c.C1482T	p.N494N	CAGCAACGACCTG	.	PASS	Atlas-SNP
NLRP2	55655	hgsc.bcm.edu	37	19	55494740	55494740	+	Silent	SNP	T	T	C	rs10412915	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	65	95	0	0.507812	0	T|0.710;C|0.290	0.290	strong	.	NLRP2	161	.	NM_017852	exon6	c.T1674C	p.F558F	CTCCTTTGGCCTC	.	PASS	Atlas-SNP
OR10H1	26539	hgsc.bcm.edu	37	19	15918654	15918654	+	Missense_Mutation	SNP	G	G	A	rs74729097		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	37	306	0	0.168182	0	A|1.000;|0.000	1.000	weak	OR10H1,colon,carcinoma,-1,2	OR10H1	59	2	NM_013940	exon1	c.C194T	p.A65V	GAGAGGGCGCACA	.	scavenged	Atlas-SNP
L3MBTL3	84456	hgsc.bcm.edu	37	6	130374102	130374102	+	Missense_Mutation	SNP	C	C	A	rs9388768	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	89	112	0	1	0	C|0.478;A|0.522	0.522	strong	.	L3MBTL3	99	.	NM_032438	exon7	c.C548A	p.T183N	CTGACACCAAGGA	.	PASS	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30882781	30882781	+	Silent	SNP	G	G	T	rs1264301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	44	62	0	0.666667	0	G|0.731;T|0.269	0.269	strong	.	VARS2	60	.	NM_001167734	exon2	c.G258T	p.A86A	GCAGGCGACTCTG	.	PASS	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	37	7	2976767	2976767	+	Silent	SNP	G	G	A	rs6945582	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	98	181	0	0.447489	0	G|0.868;A|0.132	0.132	strong	.	CARD11	339	.	NM_032415	exon9	c.C1245T	p.D415D	CATCTCGTCGTTC	.	PASS	Atlas-SNP
B3GNT1	11041	hgsc.bcm.edu	37	11	66113995	66113995	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	34	87	0	0.395349	0	.	.	none	.	B3GNT1	28	.	NM_006876	exon1	c.G1022A	p.R341H	CGAAAGCGCTCGT	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103394003	103394003	+	Missense_Mutation	SNP	G	G	A	rs1449707	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	55	78	0	0.495495	0	G|0.336;A|0.664	0.664	strong	.	.	.	.	NM_001146197	exon4	c.C9044T	p.T3015I	TGGCAAGTCTTCT	.	PASS	Atlas-SNP
SH3PXD2B	285590	hgsc.bcm.edu	37	5	171849471	171849471	+	Silent	SNP	G	G	A	rs17074773	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	26	22	0	0.764706	0	G|0.692;A|0.308	0.308	strong	.	SH3PXD2B	91	.	NM_001017995	exon2	c.C105T	p.S35S	GGAGCCGCTGGAC	.	PASS	Atlas-SNP
MROH6	642475	hgsc.bcm.edu	37	8	144654730	144654730	+	Missense_Mutation	SNP	G	G	T	rs185255597	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	42	79	0	0.626866	0	G|0.998;T|0.002	0.002	strong	.	.	.	.	NM_001100878	exon1	c.C155A	p.P52H	GCCTCAGGTTTGA	.	PASS	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	37	14	96777468	96777468	+	Missense_Mutation	SNP	G	G	C	rs3759601	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	111	230	0	0.541463	0	G|0.686;C|0.314	0.314	strong	.	ATG2B	169	.	NM_018036	exon28	c.C4147G	p.Q1383E	TTCTTTGAAAGGC	.	PASS	Atlas-SNP
TBCD	6904	hgsc.bcm.edu	37	17	80899281	80899281	+	Silent	SNP	G	G	A	rs9390	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	35	32	0	1	0	A|0.453;C|0.000;G|0.546;T|0.000	0.453	strong	.	TBCD	94	.	NM_005993	exon38	c.G3486A	p.A1162A	GGACGCGGAGCTT	.	PASS	Atlas-SNP
AP3D1	8943	hgsc.bcm.edu	37	19	2109157	2109157	+	Missense_Mutation	SNP	T	T	C	rs25673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	60	100	0	0.508475	0	T|0.907;C|0.093	0.093	strong	.	AP3D1	81	.	NM_001261826	exon30	c.A3400G	p.I1134V	CTTTGATTGAGCT	.	PASS	Atlas-SNP
AASDH	132949	hgsc.bcm.edu	37	4	57215677	57215677	+	Missense_Mutation	SNP	G	G	A	rs3796544	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	94	204	1	0.460784	0.00490196	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	.	scavenged	Atlas-SNP
PTH1R	5745	hgsc.bcm.edu	37	3	46944274	46944274	+	Silent	SNP	T	T	C	rs1138518	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	64	112	0	0.537815	0	T|0.343;C|0.657	0.657	strong	PTH1R,NS,carcinoma,0,1	PTH1R	49	1	NM_001184744	exon14	c.T1389C	p.N463N	CTGCAATGGCGAG	.	PASS	Atlas-SNP
BTN3A2	11118	hgsc.bcm.edu	37	6	26373150	26373150	+	Silent	SNP	C	C	T	rs12174631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	96	123	0	0.533333	0	C|0.924;T|0.076	0.076	strong	.	BTN3A2	44	.	NM_001197246	exon4	c.C741T	p.P247P	CCAGCCCTGGATC	.	PASS	Atlas-SNP
PLA2G4D	283748	hgsc.bcm.edu	37	15	42371752	42371752	+	Missense_Mutation	SNP	A	A	T	rs4924618	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	29	29	33	0	1	0	A|0.716;T|0.284	0.284	strong	PLA2G4D,NS,carcinoma,0,1	PLA2G4D	72	1	NM_178034	exon13	c.T1300A	p.S434T	GCATGGACTCCAG	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25021211	25021211	+	Silent	SNP	C	C	T	rs7333856	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	136	306	1	0.860759	0.00326797	C|0.274;T|0.726	0.726	strong	.	PARP4	142	.	NM_006437	exon26	c.G3228A	p.P1076P	CAAGGACGGCACC	.	PASS	Atlas-SNP
PLP1	5354	hgsc.bcm.edu	37	X	103042882	103042882	+	Silent	SNP	T	T	C	rs1126707	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	84	179	0	1	0	T|0.774;C|0.226	0.226	strong	.	PLP1	37	.	NM_001128834	exon5	c.T609C	p.D203D	TGCTGATGCCAGA	.	PASS	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	37	1	243328887	243328887	+	Nonsense_Mutation	SNP	G	G	T	rs2728433	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	11	120	0	0.0728477	0	T|0.500;G|0.500	0.500	weak	CEP170,extremity,malignant_melanoma,0,1	CEP170	153	1	NM_014812	exon13	c.C2375A	p.S792X	TGTCCTGAATTTT	.	scavenged	Atlas-SNP
TIMELESS	8914	hgsc.bcm.edu	37	12	56815922	56815922	+	Missense_Mutation	SNP	C	C	T	rs774047	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	69	95	0	0.579832	0	C|0.576;T|0.424	0.424	strong	TIMELESS,NS,carcinoma,+1,1	TIMELESS	107	1	NM_003920	exon20	c.G2492A	p.R831Q	AGCTCCCGAAGAT	.	PASS	Atlas-SNP
CCDC74A	90557	hgsc.bcm.edu	37	2	132289293	132289293	+	Missense_Mutation	SNP	T	T	C	rs2599962	bycluster;byfrequency;bysubmitter;by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	32	81	0	0.280702	0	T|0.300;C|0.700	0.700	strong	CCDC74A,NS,carcinoma,-2,1	CCDC74A	44	1	NM_001258304	exon4	c.T727C	p.S243P	GACGTCTCCCAGA	.	scavenged	Atlas-SNP
WDR59	79726	hgsc.bcm.edu	37	16	74920191	74920191	+	Silent	SNP	G	G	A	rs14308	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	97	94	0	1	0	G|0.853;A|0.147	0.147	strong	.	WDR59	66	.	NM_030581	exon24	c.C2523T	p.R841R	CTGGTCGCGTTCT	.	PASS	Atlas-SNP
CHD5	26038	hgsc.bcm.edu	37	1	6196869	6196869	+	Silent	SNP	A	A	G	rs2250358	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	22	90	0	0.349206	0	A|0.550;G|0.450	0.450	strong	.	CHD5	267	.	NM_015557	exon16	c.T2493C	p.I831I	CTGGTCAATGGTG	.	PASS	Atlas-SNP
TLR1	7096	hgsc.bcm.edu	37	4	38799493	38799493	+	Silent	SNP	A	A	G	rs200631178	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	26	55	0	0.565217	0	A|0.999;G|0.001	0.001	weak	.	TLR1	70	.	NM_003263	exon4	c.T960C	p.Y320Y	GATTTCATAGATA	.	PASS	Atlas-SNP
CACNA1A	773	hgsc.bcm.edu	37	19	13387904	13387904	+	Silent	SNP	A	A	G	rs16030	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	27	58	0	0.385714	0	A|0.841;G|0.159	0.159	strong	.	CACNA1A	715	.	NM_001127221	exon23	c.T3864C	p.F1288F	AAAGGTAAAGACG	.	PASS	Atlas-SNP
GPANK1	7918	hgsc.bcm.edu	37	6	31632134	31632134	+	Missense_Mutation	SNP	C	C	A	rs3130618	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	54	112	0	0.394161	0	C|0.839;A|0.161	0.161	strong	GPANK1,colon,carcinoma,0,1	GPANK1	19	1	NM_001199238	exon3	c.G122T	p.R41L	AAAGCTCGGGCTG	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	37	1	42045747	42045747	+	Silent	SNP	T	T	C	rs35730380	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	42	86	0	0.538462	0	T|0.958;C|0.042	0.042	strong	.	HIVEP3	235	.	NM_024503	exon4	c.A4722G	p.S1574S	CGTTTCTGACAGA	.	PASS	Atlas-SNP
COL11A1	1301	hgsc.bcm.edu	37	1	103354428	103354428	+	Silent	SNP	A	A	G	rs1763347	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	126	112	0	1	0	A|0.365;G|0.635	0.635	strong	COL11A1_ENST00000370096,NS,carcinoma,0,2	COL11A1	972	2	NM_080629	exon60	c.T4548C	p.G1516G	TGGTAAACCTGGA	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32557487	32557487	+	Silent	SNP	G	G	A	rs34396110	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	413	4	234	0	0.00968523	0	G|0.993;A|0.007	0.007	weak	HLA-DRB1,colon,carcinoma,-2,1	HLA-DRB1	41	1	NM_002124	exon1	c.C33T	p.C11C	TGTCATGCAGGAG	.	scavenged	Atlas-SNP
FBXL16	146330	hgsc.bcm.edu	37	16	746914	746914	+	Silent	SNP	G	G	A	rs4984915	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	51	83	0	0.51	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
SLIT3	6586	hgsc.bcm.edu	37	5	168175324	168175324	+	Silent	SNP	G	G	T	rs17634681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	64	98	0	0.627451	0	G|0.957;T|0.043	0.043	strong	.	SLIT3	224	.	NM_001271946	exon20	c.C2253A	p.P751P	ATCCTTGGGCATG	.	PASS	Atlas-SNP
EMILIN2	84034	hgsc.bcm.edu	37	18	2891847	2891847	+	Silent	SNP	C	C	T	rs3826638	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	29	74	0	0.491525	0	C|0.860;T|0.140	0.140	strong	.	EMILIN2	97	.	NM_032048	exon4	c.C1722T	p.R574R	AGACCGCGCAGTA	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	17113563	17113563	+	Silent	SNP	C	C	T	rs1801225	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	10	32	0	0.322581	0	C|0.657;T|0.343	0.343	strong	.	CUBN	515	.	NM_001081	exon19	c.G2487A	p.S829S	AAAAGGCGAGCGA	.	PASS	Atlas-SNP
CTDSP1	58190	hgsc.bcm.edu	37	2	219266423	219266423	+	Silent	SNP	C	C	A	rs2227251	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	70	132	0	0.472973	0	C|0.811;A|0.189	0.189	strong	.	CTDSP1	19	.	NM_001206878	exon2	c.C204A	p.G68G	GAATGGCGCCATC	.	PASS	Atlas-SNP
PSMA7	5688	hgsc.bcm.edu	37	20	60713311	60713311	+	Silent	SNP	G	G	A	rs7076	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	138	146	0	0.985714	0	G|0.369;A|0.631	0.631	strong	.	PSMA7	13	.	NM_002792	exon5	c.C507T	p.R169R	GAACTCGCGCACT	.	PASS	Atlas-SNP
MAGED2	10916	hgsc.bcm.edu	37	X	54836361	54836361	+	Silent	SNP	A	A	G	rs1043031	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	51	104	0	1	0	A|0.630;0|0.003	.	strong	.	MAGED2	74	.	NM_201222	exon3	c.A252G	p.S84S	GGCCTCATCTACT	.	PASS	Atlas-SNP
MST1	4485	hgsc.bcm.edu	37	3	49723167	49723167	+	Splice_Site	SNP	T	T	G	rs9714011	bycluster;by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	16	179	7	0.0792079	0.0391061	.	.	weak	MST1,NS,neuroblastoma,0,1	MST1	84	1	NM_020998	exon12	c.1251-2A>C	.	TGAACCTAGGCGG	.	scavenged	Atlas-SNP
ACACA	31	hgsc.bcm.edu	37	17	35696804	35696804	+	Silent	SNP	G	G	A	rs58654829	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	16	11	0	1	0	A|0.687;G|0.313	0.687	strong	.	ACACA	395	.	NM_198834	exon2	c.C45T	p.F15F	CTTCCAGAAAGAC	.	PASS	Atlas-SNP
ZFP106	64397	hgsc.bcm.edu	37	15	42742435	42742435	+	Missense_Mutation	SNP	T	T	C	rs34792942	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	105	221	0	0.552632	0	T|0.944;C|0.056	0.056	strong	.	ZFP106	117	.	NM_022473	exon2	c.A1966G	p.M656V	ATGTCATTTGTAA	.	PASS	Atlas-SNP
SRD5A1	6715	hgsc.bcm.edu	37	5	6651970	6651970	+	Silent	SNP	A	A	G	rs3822430	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	79	155	0	0.395	0	A|0.667;G|0.333	0.333	strong	SRD5A1,NS,carcinoma,0,1	SRD5A1	31	1	NM_001047	exon2	c.A309G	p.P103P	TTACCCATTTCTG	.	PASS	Atlas-SNP
LMTK2	22853	hgsc.bcm.edu	37	7	97822210	97822210	+	Silent	SNP	G	G	A	rs3801294	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	30	66	0	0.5	0	G|0.650;A|0.350	0.350	strong	.	LMTK2	228	.	NM_014916	exon11	c.G2433A	p.P811P	TTCCCCGGAAGTG	.	PASS	Atlas-SNP
PION	54103	hgsc.bcm.edu	37	7	76950699	76950699	+	Missense_Mutation	SNP	C	C	T	rs17151692	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	81	158	0	0.462857	0	C|0.907;T|0.093	0.093	strong	.	PION	74	.	NM_017439	exon25	c.G1945A	p.V649I	TTTCTACGATGTG	.	PASS	Atlas-SNP
FAM129C	199786	hgsc.bcm.edu	37	19	17641667	17641667	+	Silent	SNP	G	G	A	rs74336438	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	14	34	0	0.368421	0	G|0.948;A|0.052	0.052	strong	.	FAM129C	110	.	NM_001098524	exon3	c.G252A	p.P84P	GGAGCCGACCGGA	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150945699	150945699	+	Silent	SNP	G	G	A	rs10085060	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	267	70	224	0	0.262172	0	G|0.529;A|0.471	0.471	strong	.	FAT2	465	.	NM_001447	exon1	c.C2794T	p.L932L	CCTTCAGCCTGTT	.	PASS	Atlas-SNP
KDSR	2531	hgsc.bcm.edu	37	18	61022791	61022791	+	Silent	SNP	C	C	T	rs2003149	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	42	69	0	1	0	C|0.423;T|0.577	0.577	strong	KDSR,NS,carcinoma,0,1	KDSR	17	1	NM_002035	exon4	c.G261A	p.V87V	GCAAAGCACCACC	.	PASS	Atlas-SNP
FFAR3	2865	hgsc.bcm.edu	37	19	35849926	35849926	+	Missense_Mutation	SNP	G	G	A	rs79251979	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	827	293	535	0	0.354293	0	G|0.800;A|0.200	0.200	strong	FFAR3,NS,carcinoma,0,1	FFAR3	40	1	NM_005304	exon2	c.G134A	p.R45H	TGCAGCGCCGCCC	.	PASS	Atlas-SNP
NACA	4666	hgsc.bcm.edu	37	12	57109931	57109931	+	Missense_Mutation	SNP	A	A	T	rs2926747	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	182	191	0	0.943005	0	A|0.363;T|0.637	0.637	strong	.	NACA	131	.	NM_001113203	exon5	c.T1924A	p.S642T	GTGGGGAGGGTGC	.	PASS	Atlas-SNP
TMX4	56255	hgsc.bcm.edu	37	20	7967980	7967980	+	Silent	SNP	G	G	C	rs17425725	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	192	219	0	0.994819	0	G|0.895;C|0.105	0.105	strong	.	TMX4	39	.	NM_021156	exon6	c.C570G	p.V190V	GAAAAAGACATAA	.	PASS	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115370274	115370274	+	Missense_Mutation	SNP	T	T	C	rs10749138	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	90	129	0	0.989011	0	T|0.556;C|0.444	0.444	strong	NRAP,head_neck,carcinoma,0,1	NRAP	208	1	NM_001261463	exon31	c.A3547G	p.I1183V	CTGGAATGACACA	.	PASS	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	37	3	46008087	46008087	+	Silent	SNP	G	G	A	rs13079869	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	226	122	198	0	0.539823	0	G|0.920;A|0.080	0.080	strong	.	FYCO1	115	.	NM_024513	exon8	c.C2739T	p.C913C	CAGTGCGCAAACC	.	PASS	Atlas-SNP
CHRNA2	1135	hgsc.bcm.edu	37	8	27328511	27328511	+	Missense_Mutation	SNP	G	G	A	rs2472553	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	73	132	0	0.470968	0	G|0.819;A|0.181	0.181	strong	.	CHRNA2	48	.	NM_000742	exon2	c.C65T	p.T22I	GCTGGGGTCAGAA	.	PASS	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	37	10	26357748	26357748	+	Missense_Mutation	SNP	G	G	A	rs3817420	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	30	91	0	0.340909	0	G|0.322;A|0.678	0.678	strong	.	MYO3A	371	.	NM_017433	exon12	c.G1105A	p.V369I	ATCTACGTCTATG	.	PASS	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	37	6	111696852	111696852	+	Silent	SNP	T	T	C	rs458486	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	53	60	0	1	0	T|0.619;C|0.381	0.381	strong	.	REV3L	386	.	NM_002912	exon13	c.A2706G	p.G902G	TAACGTTCCATCT	.	PASS	Atlas-SNP
SKOR1	390598	hgsc.bcm.edu	37	15	68124665	68124665	+	Silent	SNP	C	C	A	rs72751453	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	49	121	0	0.505155	0	C|0.702;A|0.298	0.298	strong	.	SKOR1	144	.	NM_001258024	exon12	c.C2350A	p.R784R	CTGGAACGGGAAT	.	PASS	Atlas-SNP
ZNF496	84838	hgsc.bcm.edu	37	1	247473018	247473018	+	Missense_Mutation	SNP	G	G	A	rs149858668	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	48	94	0	0.505263	0	G|0.999;A|0.001	0.001	strong	.	ZNF496	80	.	NM_032752	exon7	c.C875T	p.P292L	ACCTGGGGCACTT	.	PASS	Atlas-SNP
THSD7A	221981	hgsc.bcm.edu	37	7	11509561	11509561	+	Missense_Mutation	SNP	G	G	C	rs2285744	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	59	110	0	0.531532	0	G|0.719;C|0.281	0.281	strong	.	THSD7A	219	.	NM_015204	exon9	c.C2313G	p.D771E	AATACAGTCCTTC	.	PASS	Atlas-SNP
STRA6	64220	hgsc.bcm.edu	37	15	74472525	74472525	+	Missense_Mutation	SNP	G	G	A	rs200178616		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	77	147	1	0.487342	0.00680272	G|0.999;A|0.001	0.001	weak	STRA6,NS,carcinoma,+1,1	STRA6	66	1	NM_001199042	exon19	c.C2017T	p.R673C	TGCCGCGGCTGGC	.	scavenged	Atlas-SNP
IL6R	3570	hgsc.bcm.edu	37	1	154426970	154426970	+	Missense_Mutation	SNP	A	A	C	rs2228145	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	31	45	0	0.508197	0	A|0.687;C|0.313;T|0.000	0.313	strong	.	IL6R	47	.	NM_000565	exon9	c.A1073C	p.D358A	TGCAAGATTCTTC	.	PASS	Atlas-SNP
ZC3H7A	29066	hgsc.bcm.edu	37	16	11876203	11876203	+	Missense_Mutation	SNP	T	T	C	rs1429077	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	74	144	0	0.503401	0	T|0.926;C|0.074	0.074	strong	.	ZC3H7A	72	.	NM_014153	exon2	c.A8G	p.N3S	GACACATTGGACA	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38119902	38119902	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	386	20	333	2	0.0518135	0.00600601	.	.	none	TRIOBP_ENST00000344404,NS,carcinoma,0,4	TRIOBP	262	4	NM_001039141	exon7	c.A1339G	p.T447A	AGAGCTACACGAG	.	scavenged	Atlas-SNP
DMRT2	10655	hgsc.bcm.edu	37	9	1056728	1056728	+	Missense_Mutation	SNP	G	G	C	rs3824419	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	42	52	1	0.538462	0.0192308	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	.	scavenged	Atlas-SNP
CNDP2	55748	hgsc.bcm.edu	37	18	72176083	72176083	+	Missense_Mutation	SNP	T	T	C	rs2278161	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	55	120	0	0.514019	0	T|0.801;C|0.198	0.198	strong	CNDP2,NS,carcinoma,0,1	CNDP2	55	1	NM_018235	exon5	c.T376C	p.Y126H	AAGCTGTATGGGA	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201184275	201184275	+	Silent	SNP	C	C	T	rs2275673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	255	253	188	0	0.992157	0	C|0.683;T|0.317	0.317	strong	.	IGFN1	220	.	NM_001164586	exon14	c.C8988T	p.T2996T	CCTGACCGTCCAG	.	PASS	Atlas-SNP
C6orf15	29113	hgsc.bcm.edu	37	6	31079310	31079310	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	9	123	0	0.0656934	0	.	.	none	.	C6orf15	29	.	NM_014070	exon2	c.A826C	p.N276H	ACCGATTAATATT	.	PASS	Atlas-SNP
DTX3L	151636	hgsc.bcm.edu	37	3	122290579	122290579	+	Silent	SNP	C	C	T	rs2036342	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	120	121	0	0.991736	0	C|0.681;T|0.319	0.319	strong	.	DTX3L	59	.	NM_138287	exon5	c.C2208T	p.A736A	GAAAGCCAAAGGA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9063678	9063678	+	Missense_Mutation	SNP	T	T	G	rs2547064	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	123	305	0	0.43007	0	T|0.788;G|0.212	0.212	strong	MUC16_ENST00000397910,NS,carcinoma,0,3	MUC16	4315	3	NM_024690	exon3	c.A23768C	p.D7923A	GACGTGTCCAAAG	.	PASS	Atlas-SNP
THBS2	7058	hgsc.bcm.edu	37	6	169632219	169632219	+	Silent	SNP	G	G	A	rs35935937	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	64	170	0	0.470588	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
RSPH4A	345895	hgsc.bcm.edu	37	6	116950734	116950734	+	Missense_Mutation	SNP	G	G	A	rs6927567	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	20	59	0	0.416667	0	G|0.812;A|0.188	0.188	strong	.	RSPH4A	54	.	NM_001010892	exon4	c.G1667A	p.R556H	AGGGTCGCTGTAA	.	PASS	Atlas-SNP
RET	5979	hgsc.bcm.edu	37	10	43610119	43610119	+	Missense_Mutation	SNP	G	G	A	rs1799939	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	37	58	0	0.468354	0	G|0.839;A|0.161	0.161	strong	RET_ENST00000340058,adrenal_gland,pheochromocytoma,0,2	RET	916	2	NM_020630	exon11	c.G2071A	p.G691S	TCTTCCGGTGCCC	.	PASS	Atlas-SNP
CRB2	286204	hgsc.bcm.edu	37	9	126125327	126125327	+	Missense_Mutation	SNP	G	G	A	rs138381817	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	52	126	0	0.58427	0	G|0.993;A|0.007	0.007	strong	.	CRB2	86	.	NM_173689	exon2	c.G278A	p.R93H	GCTTCCGCTGCTA	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25075864	25075864	+	Missense_Mutation	SNP	T	T	C	rs35200240	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	43	132	0	0.367521	0	T|0.972;C|0.028	0.028	strong	.	PARP4	142	.	NM_006437	exon3	c.A241G	p.I81V	CCCTGATAGATTT	.	PASS	Atlas-SNP
C16orf46	123775	hgsc.bcm.edu	37	16	81094951	81094951	+	Missense_Mutation	SNP	A	A	G	rs10459872	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	272	129	284	0	0.474265	0	A|0.912;G|0.088	0.088	strong	.	C16orf46	57	.	NM_001100873	exon3	c.T1003C	p.Y335H	ATTTGTAGCTTTG	.	PASS	Atlas-SNP
PARP1	142	hgsc.bcm.edu	37	1	226555302	226555302	+	Missense_Mutation	SNP	A	A	G	rs1136410	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	42	107	0	0.428571	0	A|0.827;G|0.173	0.173	strong	.	PARP1	100	.	NM_001618	exon17	c.T2285C	p.V762A	ATTTCCACCTTGG	.	PASS	Atlas-SNP
MBD1	4152	hgsc.bcm.edu	37	18	47801800	47801800	+	Silent	SNP	G	G	A	rs140690	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	34	34	0	1	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
TOPAZ1	375337	hgsc.bcm.edu	37	3	44329245	44329245	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	14	70	0	0.237288	0	.	.	none	.	.	.	.	NM_001145030	exon11	c.C3595T	p.L1199L	CCTTCTCTGAAAA	.	PASS	Atlas-SNP
ITPA	3704	hgsc.bcm.edu	37	20	3193978	3193978	+	Silent	SNP	G	G	A	rs8362	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	167	137	0	1	0	G|0.607;A|0.393	0.393	strong	.	ITPA	16	.	NM_033453	exon3	c.G138A	p.Q46Q	GTACCAGGGGGAG	.	PASS	Atlas-SNP
TNFRSF10A	8797	hgsc.bcm.edu	37	8	23058220	23058220	+	Missense_Mutation	SNP	T	T	G	rs20576	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	99	229	0	0.466981	0	T|0.873;G|0.127	0.127	strong	TNFRSF10A,NS,malignant_melanoma,-1,1	TNFRSF10A	40	1	NM_003844	exon5	c.A683C	p.E228A	ACACACTCGATGT	.	PASS	Atlas-SNP
SLC9C1	285335	hgsc.bcm.edu	37	3	111983157	111983157	+	Silent	SNP	G	G	A	rs62276974	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	53	101	0	0.424	0	G|0.803;A|0.197	0.197	strong	.	.	.	.	NM_183061	exon9	c.C912T	p.L304L	CACCATGAGAAAA	.	PASS	Atlas-SNP
OR5M3	219482	hgsc.bcm.edu	37	11	56237410	56237410	+	Silent	SNP	A	A	G	rs617315	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	119	220	0	0.524229	0	A|0.822;G|0.178	0.178	strong	OR5M3,NS,carcinoma,-1,1	OR5M3	103	1	NM_001004742	exon1	c.T564C	p.A188A	GGTCCCAGCACAG	.	PASS	Atlas-SNP
LSR	51599	hgsc.bcm.edu	37	19	35741456	35741456	+	Silent	SNP	T	T	C	rs2073900	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	90	101	0	0.989011	0	T|0.384;C|0.616	0.616	strong	.	LSR	60	.	NM_205834	exon2	c.T492C	p.V164V	CTACGTTGAGTGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507323	195507323	+	Missense_Mutation	SNP	T	T	C	rs201618076		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	382	50	24	8	0.13089	0.333333	.	.	weak	MUC4_ENST00000463781,uveal_tract,malignant_melanoma,0,1	MUC4	1505	1	NM_018406	exon2	c.A11128G	p.T3710A	GGGTGGTGTGACC	.	scavenged	Atlas-SNP
ATP10D	57205	hgsc.bcm.edu	37	4	47525054	47525054	+	Missense_Mutation	SNP	T	T	C	rs7683838	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	44	80	0	0.53012	0	T|0.869;C|0.131	0.131	strong	.	ATP10D	168	.	NM_020453	exon4	c.T511C	p.C171R	GACCGATGCTGGA	.	PASS	Atlas-SNP
SLC22A3	6581	hgsc.bcm.edu	37	6	160858188	160858188	+	Silent	SNP	G	G	A	rs2292334	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	51	140	0	0.490385	0	G|0.697;A|0.303	0.303	strong	.	SLC22A3	58	.	NM_021977	exon7	c.G1233A	p.A411A	CTTTGCGGCAAGC	.	PASS	Atlas-SNP
ADORA2A	135	hgsc.bcm.edu	37	22	24837301	24837301	+	Silent	SNP	T	T	C	rs5751876	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	26	62	0	0.419355	0	T|0.492;C|0.508	0.508	strong	.	ADORA2A	44	.	NM_000675	exon3	c.T1083C	p.Y361Y	TGGCTATGCCCTG	.	PASS	Atlas-SNP
CCDC61	729440	hgsc.bcm.edu	37	19	46520506	46520506	+	Missense_Mutation	SNP	G	G	C	rs61742389	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	14	53	0	0.358974	0	A|0.000;C|0.012;G|0.987	0.012	strong	.	CCDC61	32	.	NM_001267723	exon12	c.G1312C	p.G438R	CTCAGGGGTCACC	.	PASS	Atlas-SNP
EPSTI1	94240	hgsc.bcm.edu	37	13	43462422	43462422	+	Missense_Mutation	SNP	A	A	T	rs1044856	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	107	173	0	0.572192	0	A|0.789;T|0.211	0.211	strong	.	EPSTI1	47	.	NM_001002264	exon13	c.T1197A	p.N399K	GTAGAGATTAAAT	.	PASS	Atlas-SNP
VWA5B2	90113	hgsc.bcm.edu	37	3	183955109	183955109	+	Silent	SNP	C	C	T	rs843334	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	55	89	0	0.384615	0	C|0.817;T|0.183	0.183	strong	.	VWA5B2	47	.	NM_138345	exon11	c.C1629T	p.P543P	GACCCCCCGGGAG	.	PASS	Atlas-SNP
THUMPD3	25917	hgsc.bcm.edu	37	3	9425944	9425944	+	Silent	SNP	G	G	C	rs1046788	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	60	80	0	0.566038	0	G|0.878;C|0.122	0.122	strong	.	THUMPD3	46	.	NM_001114092	exon9	c.G1284C	p.R428R	CCTACGGGAGATG	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28419619	28419619	+	Missense_Mutation	SNP	C	C	T	rs141441362	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	515	129	551	0	0.250485	0	C|0.947;T|0.053	0.053	strong	.	HERC2	501	.	NM_004667	exon65	c.G9979A	p.V3327M	CATCCACAGTTGT	.	PASS	Atlas-SNP
MAPK8IP3	23162	hgsc.bcm.edu	37	16	1812972	1812972	+	Silent	SNP	G	G	C	rs2294616	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	98	185	0	0.535519	0	G|0.835;C|0.165	0.165	strong	.	MAPK8IP3	164	.	NM_015133	exon16	c.G1860C	p.S620S	GATCTCGGCAGGC	.	PASS	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	37	16	15098047	15098047	+	Missense_Mutation	SNP	C	C	G	rs11549900	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	70	227	0	0.295359	0	C|0.742;G|0.258	0.258	strong	.	PDXDC1	59	.	NM_015027	exon5	c.C246G	p.I82M	CAGAATCCAAAAT	.	PASS	Atlas-SNP
GGA2	23062	hgsc.bcm.edu	37	16	23480294	23480294	+	Silent	SNP	C	C	T	rs35347972	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	34	109	0	0.395349	0	C|0.977;T|0.023	0.023	strong	.	GGA2	49	.	NM_015044	exon16	c.G1644A	p.P548P	GGATGCCGGCTGC	.	PASS	Atlas-SNP
ACOT9	23597	hgsc.bcm.edu	37	X	23722835	23722835	+	Silent	SNP	A	A	G	rs11175	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	125	225	0	1	0	A|0.840;0|0.026	.	strong	.	ACOT9	33	.	NM_001037171	exon15	c.T1234C	p.L412L	AAACCAATGGCAC	.	PASS	Atlas-SNP
NXPE2	120406	hgsc.bcm.edu	37	11	114576626	114576626	+	Missense_Mutation	SNP	A	A	T	rs1356428	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	84	173	0	0.497041	0	A|0.682;T|0.318	0.318	strong	FAM55B_ENST00000389586,NS,carcinoma,0,1	.	.	1	NM_182495	exon5	c.A1052T	p.N351I	CAAAAAATATAAA	.	PASS	Atlas-SNP
DDX58	23586	hgsc.bcm.edu	37	9	32526146	32526146	+	Missense_Mutation	SNP	G	G	A	rs10813831	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	45	90	0	0.45	0	G|0.788;A|0.212	0.212	strong	.	DDX58	82	.	NM_014314	exon1	c.C19T	p.R7C	GGCTGCGTCGCTG	.	PASS	Atlas-SNP
C4orf17	84103	hgsc.bcm.edu	37	4	100443800	100443800	+	Missense_Mutation	SNP	G	G	A	rs17029087	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	106	113	1	1	0.00884956	G|0.780;A|0.220	0.220	strong	.	C4orf17	42	.	NM_032149	exon3	c.G271A	p.E91K	GTCCAGGAGAGCC	.	PASS	Atlas-SNP
MYH15	22989	hgsc.bcm.edu	37	3	108147510	108147510	+	Silent	SNP	A	A	G	rs201473403	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	139	234	0	0.532567	0	A|0.999;G|0.001	0.001	strong	.	MYH15	223	.	NM_014981	exon28	c.T3591C	p.F1197F	TGTCTCAAAGTGC	.	PASS	Atlas-SNP
LIG1	3978	hgsc.bcm.edu	37	19	48654553	48654553	+	Silent	SNP	G	G	T	rs20580	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	55	109	0	0.509259	0	G|0.479;T|0.521	0.521	strong	LIG1,NS,carcinoma,-2,1	LIG1	151	1	NM_000234	exon7	c.C510A	p.A170A	CTCTGTGGCCACT	.	PASS	Atlas-SNP
HIBCH	26275	hgsc.bcm.edu	37	2	191161622	191161622	+	Missense_Mutation	SNP	T	T	C	rs1058180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	355	157	360	1	0.442254	0.00277778	T|0.309;C|0.691	0.691	strong	.	HIBCH	28	.	NM_014362	exon3	c.A136G	p.T46A	CTCCCGTGCAACC	.	PASS	Atlas-SNP
SCN3A	6328	hgsc.bcm.edu	37	2	166003479	166003479	+	Silent	SNP	G	G	A	rs16850131	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	234	106	241	0	0.452991	0	G|0.756;A|0.244	0.244	strong	.	SCN3A	544	.	NM_001081676	exon12	c.C1441T	p.L481L	CCAACAGCTCTCC	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4511181	4511181	+	Missense_Mutation	SNP	C	C	T	rs115537722	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	101	155	0	0.590643	0	C|0.985;T|0.015	0.015	strong	.	PLIN4	191	.	NM_001080400	exon3	c.G2749A	p.V917I	TGCAGACGGTGTC	.	PASS	Atlas-SNP
C4orf21	55345	hgsc.bcm.edu	37	4	113524723	113524723	+	Missense_Mutation	SNP	G	G	A	rs17669218	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	45	160	0	0.368852	0	G|0.937;A|0.063	0.063	strong	.	C4orf21	223	.	NM_018392	exon10	c.C2933T	p.T978I	TCTGGTGTCTCTG	.	PASS	Atlas-SNP
COL2A1	1280	hgsc.bcm.edu	37	12	48367976	48367976	+	Missense_Mutation	SNP	C	C	T	rs2070739	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	345	167	293	0	0.484058	0	T|0.125;G|0.000	0.125	strong	.	COL2A1	368	.	NM_001844	exon53	c.G4213A	p.G1405S	GGTTGCCAGCTGC	.	PASS	Atlas-SNP
NFKBIA	4792	hgsc.bcm.edu	37	14	35873770	35873770	+	Silent	SNP	G	G	A	rs1957106	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	88	73	0	1	0	G|0.770;A|0.230	0.230	strong	.	NFKBIA	28	.	NM_020529	exon1	c.C81T	p.D27D	GCGGTCGTCCAGT	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56205262	56205262	+	Missense_Mutation	SNP	A	A	C	rs12103986	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	303	105	345	0	0.346535	0	A|0.529;C|0.471	0.471	strong	.	ALPK2	487	.	NM_052947	exon5	c.T2157G	p.H719Q	TTCTTCATGCTGT	.	PASS	Atlas-SNP
SLX4	84464	hgsc.bcm.edu	37	16	3656482	3656482	+	Silent	SNP	C	C	T	rs8061528	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	91	173	0	0.450495	0	C|0.767;T|0.233	0.233	strong	.	SLX4	173	.	NM_032444	exon3	c.G753A	p.A251A	ATTCCCCGCCATC	.	PASS	Atlas-SNP
MED13L	23389	hgsc.bcm.edu	37	12	116446445	116446445	+	Silent	SNP	C	C	T	rs3741768	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	110	181	0	0.511628	0	C|0.855;T|0.145	0.145	strong	.	MED13L	193	.	NM_015335	exon10	c.G1773A	p.Q591Q	AGACAACTGCTGG	.	PASS	Atlas-SNP
EIF3G	8666	hgsc.bcm.edu	37	19	10226686	10226686	+	Silent	SNP	G	G	A	rs200490441	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	34	68	0	0.557377	0	G|0.999;A|0.001	0.001	strong	.	EIF3G	16	.	NM_003755	exon8	c.C660T	p.D220D	GGCCCCGTCGCGC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187534363	187534363	+	Silent	SNP	G	G	A	rs2249916	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	27	63	0	0.415385	0	G|0.346;T|0.010	.	strong	.	FAT1	500	.	NM_005245	exon13	c.C9363T	p.N3121N	GGGGGCGTTATCG	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144941419	144941419	+	Silent	SNP	C	C	T	rs12681478	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	47	80	0	0.447619	0	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	.	PASS	Atlas-SNP
USP8	9101	hgsc.bcm.edu	37	15	50785016	50785016	+	Missense_Mutation	SNP	A	A	G	rs41475144	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	15	142	1	0.0882353	0.00704225	G|1.000;|0.000	1.000	weak	USP8,NS,carcinoma,0,3	USP8	90	3	NM_001128610	exon15	c.A2353G	p.T785A	GGAAATACTTGTT	.	scavenged	Atlas-SNP
PLXNA3	55558	hgsc.bcm.edu	37	X	153696247	153696247	+	Silent	SNP	G	G	C	rs5987266	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	59	116	0	1	0	G|0.642;C|0.358	0.358	strong	.	PLXNA3	156	.	NM_017514	exon21	c.G3723C	p.A1241A	GGTGGCGTACAAG	.	PASS	Atlas-SNP
CLMN	79789	hgsc.bcm.edu	37	14	95660242	95660242	+	Silent	SNP	A	A	G	rs1128468	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	39	97	0	0.448276	0	A|0.884;G|0.116	0.116	strong	.	CLMN	103	.	NM_024734	exon12	c.T2784C	p.Y928Y	CTGAACATAGCTA	.	PASS	Atlas-SNP
ZNF221	7638	hgsc.bcm.edu	37	19	44471252	44471252	+	Missense_Mutation	SNP	T	T	C	rs61734609	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	40	82	0	0.5	0	T|0.910;C|0.090	0.090	strong	.	ZNF221	59	.	NM_013359	exon6	c.T1598C	p.L533P	AAAAGCTATACAA	.	PASS	Atlas-SNP
ANO1	55107	hgsc.bcm.edu	37	11	70007311	70007311	+	Silent	SNP	A	A	G	rs2276066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	55	109	0	0.433071	0	A|0.393;G|0.607	0.607	strong	.	ANO1	156	.	NM_018043	exon17	c.A1623G	p.R541R	CTACAGAATCTCC	.	PASS	Atlas-SNP
ATP6V0A2	23545	hgsc.bcm.edu	37	12	124241506	124241506	+	Missense_Mutation	SNP	C	C	T	rs17883456	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	71	146	0	0.470199	0	C|0.976;T|0.024	0.024	strong	.	ATP6V0A2	68	.	NM_012463	exon19	c.C2438T	p.A813V	TTTCTGCGTTTCT	.	PASS	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	37	1	208227814	208227814	+	Silent	SNP	C	C	T	rs2274447	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	52	87	1	0.409449	0.0114943	C|0.995;T|0.005	0.005	strong	PLXNA2,caecum,carcinoma,-2,1	PLXNA2	178	1	NM_025179	exon14	c.G2808A	p.E936E	CTTACACTCGCCA	.	scavenged	Atlas-SNP
AKAP5	9495	hgsc.bcm.edu	37	14	64935726	64935726	+	Missense_Mutation	SNP	C	C	T	rs2230492	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	39	86	0	0.414894	0	C|0.996;T|0.004	0.004	strong	.	AKAP5	23	.	NM_004857	exon2	c.C614T	p.S205F	CAACTTCTGGAGA	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121416623	121416623	+	Missense_Mutation	SNP	G	G	C	rs3732407	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	101	181	0	0.476415	0	G|0.843;C|0.157	0.157	strong	.	GOLGB1	319	.	NM_001256486	exon13	c.C2747G	p.T916S	TTCTCAGTCATAC	.	PASS	Atlas-SNP
TRPA1	8989	hgsc.bcm.edu	37	8	72948588	72948588	+	Silent	SNP	C	C	T	rs13280644	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	119	245	0	0.468504	0	C|0.934;T|0.066	0.066	strong	.	TRPA1	256	.	NM_007332	exon21	c.G2490A	p.L830L	CCACTGCAGATGA	.	PASS	Atlas-SNP
MYO15A	51168	hgsc.bcm.edu	37	17	18058468	18058468	+	Missense_Mutation	SNP	G	G	A	rs140140417	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	35	96	0	0.376344	0	G|0.998;A|0.002	0.002	strong	.	MYO15A	268	.	NM_016239	exon45	c.G8269A	p.V2757M	GAAAGCGTGAAGC	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7890053	7890053	+	Missense_Mutation	SNP	G	G	A	rs1776342	bycluster;byfrequency;by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	28	266	0	0.285714	0	G|0.990;A|0.010	0.010	strong	PER3,NS,carcinoma,0,1	PER3	95	1	NM_016831	exon18	c.G3019A	p.A1007T	GCCAGCGCTCTGT	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36845738	36845738	+	Missense_Mutation	SNP	C	C	T	rs760998	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	93	160	1	0.54386	0.00625	C|0.680;T|0.320	0.320	strong	KIAA1755,NS,carcinoma,0,1	KIAA1755	145	1	NM_001029864	exon13	c.G2818A	p.E940K	TCAGCTCAGCCTG	.	scavenged	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7897133	7897133	+	Missense_Mutation	SNP	A	A	G	rs10462021	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	57	90	0	0.655172	0	A|0.865;G|0.135	0.135	strong	.	PER3	95	.	NM_016831	exon20	c.A3446G	p.H1149R	TTTCTCATGGGCA	.	PASS	Atlas-SNP
TRIM5	85363	hgsc.bcm.edu	37	11	5701001	5701001	+	Missense_Mutation	SNP	C	C	T	rs10838525	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	50	131	0	0.458716	0	C|0.763;T|0.237	0.237	strong	TRIM5_ENST00000380034,NS,carcinoma,0,1	TRIM5	111	1	NM_033093	exon2	c.G407A	p.R136Q	TACTCCCGGGCAA	.	PASS	Atlas-SNP
WDFY2	115825	hgsc.bcm.edu	37	13	52313253	52313253	+	Missense_Mutation	SNP	G	G	A	rs77486739	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	75	142	0	0.503356	0	G|0.996;A|0.004	0.004	strong	.	WDFY2	36	.	NM_052950	exon7	c.G667A	p.V223I	CACTCTGTCATCA	.	PASS	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178770981	178770981	+	Silent	SNP	A	A	G	rs2271212	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	27	146	0	0.284211	0	A|0.677;G|0.323	0.323	strong	.	ADAMTS2	190	.	NM_021599	exon2	c.T321C	p.S107S	GAGGTGACTGCCA	.	PASS	Atlas-SNP
ZNF224	7767	hgsc.bcm.edu	37	19	44612231	44612231	+	Missense_Mutation	SNP	A	A	G	rs3746319	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	70	132	0	0.514706	0	A|0.330;G|0.670	0.670	strong	.	ZNF224	70	.	NM_013398	exon6	c.A1918G	p.K640E	TTCTCTAAAGTGC	.	PASS	Atlas-SNP
GRIN3A	116443	hgsc.bcm.edu	37	9	104433347	104433347	+	Silent	SNP	G	G	A	rs13284303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	73	140	0	0.496599	0	G|0.871;A|0.129	0.129	strong	.	GRIN3A	186	.	NM_133445	exon3	c.C1347T	p.I449I	TACTCTGATGGAA	.	PASS	Atlas-SNP
OR4C15	81309	hgsc.bcm.edu	37	11	55322539	55322539	+	Missense_Mutation	SNP	G	G	A	rs12790125	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	355	137	376	1	0.385915	0.00265957	G|0.819;A|0.181	0.181	strong	OR4C15,arm,malignant_melanoma,-2,1	OR4C15	145	1	NM_001001920	exon1	c.G757A	p.V253I	ATGGTGGTCATCA	.	PASS	Atlas-SNP
SLC44A3	126969	hgsc.bcm.edu	37	1	95294089	95294089	+	Silent	SNP	T	T	C	rs2640065	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	44	132	0	0.407407	0	T|0.790;C|0.210	0.210	strong	SLC44A3,NS,carcinoma,0,1	SLC44A3	109	1	NM_001114106	exon5	c.T456C	p.Y152Y	CAACTATACCCAC	.	PASS	Atlas-SNP
ADCK3	56997	hgsc.bcm.edu	37	1	227172290	227172290	+	Silent	SNP	C	C	T	rs12593	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	57	121	1	0.407143	0.00826446	C|0.672;T|0.328	0.328	strong	ADCK3_ENST00000366779,caecum,carcinoma,0,4	ADCK3	77	4	NM_020247	exon12	c.C1440T	p.F480F	GCTGTTCGAGTTC	.	scavenged	Atlas-SNP
RBMX	27316	hgsc.bcm.edu	37	X	135956411	135956411	+	Missense_Mutation	SNP	C	C	A	rs35085326	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	700	234	774	2	0.334286	0.00258398	C|0.989;A|0.011	0.011	strong	.	RBMX	149	.	NM_002139	exon9	c.G1066T	p.G356W	GGTACCCCCTTTC	.	PASS	Atlas-SNP
DDX18	8886	hgsc.bcm.edu	37	2	118583940	118583940	+	Silent	SNP	C	C	T	rs2303348	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	40	89	0	0.493827	0	C|0.689;T|0.311	0.311	strong	DDX18,colon,carcinoma,+1,1	DDX18	79	1	NM_006773	exon11	c.C1617T	p.R539R	TCTTCGCTACTTG	.	PASS	Atlas-SNP
CD101	9398	hgsc.bcm.edu	37	1	117560818	117560818	+	Silent	SNP	A	A	G	rs3736908	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	103	0	1	0	A|0.738;G|0.262	0.262	strong	.	CD101	95	.	NM_001256109	exon6	c.A1653G	p.Q551Q	GCCGCAAGTGATG	.	PASS	Atlas-SNP
PPFIA4	8497	hgsc.bcm.edu	37	1	203024767	203024767	+	Silent	SNP	C	C	T	rs3736314	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	278	105	230	0	0.377698	0	C|0.848;T|0.152	0.152	strong	.	PPFIA4	139	.	NM_015053	exon3	c.C519T	p.A173A	TGCTGCCCAGGAC	.	PASS	Atlas-SNP
KIAA1244	57221	hgsc.bcm.edu	37	6	138608212	138608212	+	Silent	SNP	C	C	T	rs17568867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	30	82	0	0.416667	0	C|0.977;T|0.023	0.023	strong	.	KIAA1244	236	.	NM_020340	exon17	c.C2787T	p.G929G	TGAAGGCGTTGCT	.	PASS	Atlas-SNP
LSMD1	84316	hgsc.bcm.edu	37	17	7760397	7760397	+	Silent	SNP	G	G	A	rs4724	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	52	88	0	0.530612	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
MUS81	80198	hgsc.bcm.edu	37	11	65631973	65631973	+	Silent	SNP	G	G	A	rs630303	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	114	92	0	1	0	A|0.474;C|0.004	0.474	strong	MUS81_ENST00000308110,NS,adenoma,0,3	MUS81	68	3	NM_025128	exon11	c.G1065A	p.R355R	GTTCCGGCTGAAG	.	PASS	Atlas-SNP
CASKIN2	57513	hgsc.bcm.edu	37	17	73498623	73498623	+	Silent	SNP	A	A	G	rs7502835	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	79	67	0	1	0	A|0.557;G|0.443	0.443	strong	CASKIN2,NS,carcinoma,0,1	CASKIN2	66	1	NM_020753	exon18	c.C2532C	p.A844A	GGTCACACTAGGA	.	PASS	Atlas-SNP
PTK2B	2185	hgsc.bcm.edu	37	8	27255128	27255128	+	Silent	SNP	T	T	C	rs1045510	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	46	132	0	0.446602	0	T|0.642;C|0.358	0.358	strong	.	PTK2B	304	.	NM_173174	exon7	c.T27C	p.S9S	CCTGAGTCGAGTA	.	PASS	Atlas-SNP
OR8J3	81168	hgsc.bcm.edu	37	11	55905078	55905078	+	Missense_Mutation	SNP	C	C	T	rs61742348	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	93	185	1	0.5	0.00540541	C|0.901;T|0.099	0.099	strong	OR8J3,NS,carcinoma,0,2	OR8J3	112	2	NM_001004064	exon1	c.G117A	p.M39I	CCCTGCCATGGTC	.	scavenged	Atlas-SNP
SLCO1B1	10599	hgsc.bcm.edu	37	12	21331599	21331599	+	Silent	SNP	T	T	C	rs4149057	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	135	201	0	0.567227	0	T|0.566;C|0.434	0.434	strong	.	SLCO1B1	151	.	NM_006446	exon6	c.T571C	p.L191L	GTACCATTGGGGC	.	PASS	Atlas-SNP
ANKRD44	91526	hgsc.bcm.edu	37	2	197863698	197863698	+	Silent	SNP	G	G	A	rs17385301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	313	153	292	0	0.488818	0	G|0.972;A|0.028	0.028	strong	ANKRD44_ENST00000424317,caecum,carcinoma,0,2	ANKRD44	281	2	NM_001195144	exon24	c.C2598T	p.N866N	TACTGCGTTCACT	.	PASS	Atlas-SNP
CACNA2D1	781	hgsc.bcm.edu	37	7	81593541	81593541	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	8	97	0	0.0661157	0	.	.	none	.	CACNA2D1	191	.	NM_000722	exon33	c.A2709G	p.G903G	GCGATGTCCTGCT	.	PASS	Atlas-SNP
PGAM5	192111	hgsc.bcm.edu	37	12	133294371	133294371	+	Missense_Mutation	SNP	A	A	G	rs117147264	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	15	56	0	0.288462	0	A|0.971;G|0.029	0.029	strong	PGAM5,NS,carcinoma,0,1	PGAM5	18	1	NM_138575	exon4	c.A572G	p.K191R	ATTGGAAGCCGGA	.	PASS	Atlas-SNP
LMO7	4008	hgsc.bcm.edu	37	13	76395464	76395464	+	Missense_Mutation	SNP	C	C	T	rs41286126	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	54	90	0	0.524272	0	C|0.935;T|0.065	0.065	strong	.	LMO7	334	.	NM_015842	exon11	c.C1660T	p.P554S	ACTTATCCTTCAG	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56204991	56204991	+	Missense_Mutation	SNP	C	C	T	rs3809970	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	76	295	0	0.36019	0	C|0.532;T|0.468	0.468	strong	.	ALPK2	487	.	NM_052947	exon5	c.G2428A	p.G810S	GGTCACCAGCCTC	.	PASS	Atlas-SNP
RAB3IL1	5866	hgsc.bcm.edu	37	11	61674118	61674118	+	Silent	SNP	C	C	T	rs174476	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	48	86	0	0.564706	0	C|0.743;T|0.257	0.257	strong	.	RAB3IL1	39	.	NM_013401	exon5	c.G477A	p.T159T	GACCAGCGTCTTC	.	PASS	Atlas-SNP
OR11H2	79334	hgsc.bcm.edu	37	14	20181502	20181502	+	Missense_Mutation	SNP	C	C	T	rs201024081	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	792	289	725	2	0.364899	0.00275862	.	.	weak	.	.	.	.	NM_001197287	exon2	c.G574A	p.V192I	ACACAACATGGTC	.	PASS	Atlas-SNP
KIF17	57576	hgsc.bcm.edu	37	1	21031042	21031042	+	Missense_Mutation	SNP	T	T	C	rs2296225	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	240	100	226	0	0.416667	0	T|0.885;C|0.115	0.115	strong	.	KIF17	130	.	NM_001122819	exon5	c.A1021G	p.I341V	CATTGATGCGCGG	.	PASS	Atlas-SNP
LRRCC1	85444	hgsc.bcm.edu	37	8	86021994	86021994	+	Missense_Mutation	SNP	G	G	A	rs62525422	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	73	140	0	0.41954	0	G|0.925;A|0.075	0.075	strong	.	LRRCC1	212	.	NM_033402	exon2	c.G269A	p.C90Y	AACTGTGCACATT	.	PASS	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117158745	117158745	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	470	26	445	0	0.0553191	0	.	.	none	IGSF3,extremity,malignant_melanoma,0,1	IGSF3	294	1	NM_001542	exon3	c.T378G	p.D126E	TTGCTTATCAGTG	.	scavenged	Atlas-SNP
TOR1B	27348	hgsc.bcm.edu	37	9	132569532	132569532	+	Silent	SNP	C	C	T	rs16936946	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	91	238	0	0.450495	0	C|0.987;T|0.013	0.013	strong	.	TOR1B	20	.	NM_014506	exon3	c.C531T	p.D177D	ATTTGACGAGATG	.	PASS	Atlas-SNP
FAM181B	220382	hgsc.bcm.edu	37	11	82443817	82443817	+	Silent	SNP	G	G	A	rs2291793	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	16	46	0	0.4	0	G|0.745;A|0.255	0.255	strong	.	FAM181B	14	.	NM_175885	exon1	c.C955T	p.L319L	GGTACAGTAGGTT	.	PASS	Atlas-SNP
SUSD5	26032	hgsc.bcm.edu	37	3	33194990	33194990	+	Missense_Mutation	SNP	C	C	A	rs6810039	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	117	302	0	0.431734	0	C|0.374;A|0.626	0.626	strong	.	SUSD5	53	.	NM_015551	exon5	c.G1134T	p.E378D	AGCCCCCTCTGTC	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103410782	103410782	+	Missense_Mutation	SNP	T	T	C	rs1375719	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	37	96	0	0.513889	0	A|0.014;C|0.352	0.352	strong	.	.	.	.	NM_001146197	exon3	c.A286G	p.I96V	AATTAATAACTGA	.	PASS	Atlas-SNP
KIAA1024	23251	hgsc.bcm.edu	37	15	79750127	79750127	+	Silent	SNP	A	A	G	rs2902954	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	46	64	0	0.567901	0	A|0.701;G|0.299	0.299	strong	KIAA1024,NS,carcinoma,0,1	KIAA1024	146	1	NM_015206	exon2	c.A1638G	p.G546G	CACAGGATCCTTG	.	PASS	Atlas-SNP
THRAP3	9967	hgsc.bcm.edu	37	1	36752152	36752152	+	Silent	SNP	C	C	T	rs2242428	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	72	174	0	0.585366	0	C|0.710;T|0.290	0.290	strong	THRAP3,NS,carcinoma,+1,2	THRAP3	93	2	NM_005119	exon4	c.C321T	p.Y107Y	AAACTACCGCTCA	.	PASS	Atlas-SNP
LBX2	85474	hgsc.bcm.edu	37	2	74725178	74725178	+	Missense_Mutation	SNP	G	G	A	rs17009998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	117	152	0	1	0	G|0.774;A|0.226	0.226	strong	.	LBX2	13	.	NM_001009812	exon2	c.C461T	p.S154F	TCCGGGGACAACG	.	PASS	Atlas-SNP
NPHS1	4868	hgsc.bcm.edu	37	19	36339247	36339247	+	Missense_Mutation	SNP	C	C	T	rs33950747	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	38	81	0	0.387755	0	C|0.958;T|0.042	0.042	strong	.	NPHS1	165	.	NM_004646	exon10	c.G1223A	p.R408Q	TCCTCCCGCCGCG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179462494	179462494	+	Silent	SNP	A	A	G	rs35833641	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	106	154	0	0.509615	0	A|0.821;G|0.179	0.179	strong	.	TTN	18412	.	NM_001267550	exon294	c.T57315C	p.H19105H	TCCAGCATGGACA	.	PASS	Atlas-SNP
ARHGEF26	26084	hgsc.bcm.edu	37	3	153943770	153943770	+	Missense_Mutation	SNP	C	C	G	rs74965475	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	105	187	0	0.475113	0	C|0.990;G|0.010	0.010	strong	.	ARHGEF26	158	.	NM_001251962	exon11	c.C2061G	p.N687K	CTTTAACGATGTG	.	PASS	Atlas-SNP
ZMYND8	23613	hgsc.bcm.edu	37	20	45878118	45878118	+	Missense_Mutation	SNP	C	C	G	rs77137073	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	62	124	0	0.459259	0	C|0.991;G|0.009	0.009	strong	ZMYND8,NS,lymphoid_neoplasm,0,1	ZMYND8	166	1	NM_183047	exon13	c.G1687C	p.V563L	GAGGAACAGGGGT	.	PASS	Atlas-SNP
GPR111	222611	hgsc.bcm.edu	37	6	47654742	47654742	+	Silent	SNP	A	A	T	rs9296573	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	388	222	314	0	0.572165	0	A|0.464;T|0.536	0.536	strong	.	GPR111	123	.	NM_153839	exon8	c.A1878T	p.L626L	CATCCTAGTGTTT	.	PASS	Atlas-SNP
WDR88	126248	hgsc.bcm.edu	37	19	33635761	33635761	+	Silent	SNP	C	C	T	rs3848596	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	94	172	0	0.443396	0	C|0.574;N|0.000	.	strong	.	WDR88	50	.	NM_173479	exon3	c.C399T	p.D133D	GGTGGACGGTTCT	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1497803	1497803	+	Silent	SNP	C	C	T	rs1126797	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	56	116	0	0.5	0	A|0.000;C|0.646;G|0.000;T|0.354	0.354	strong	.	TPO	224	.	NM_001206744	exon11	c.C1998T	p.D666D	GCGGGACGGTGAC	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52887904	52887904	+	Silent	SNP	T	T	C	rs2042913	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	37	62	0	0.528571	0	T|0.637;C|0.363	0.363	strong	ZNF880,colon,carcinoma,0,1	ZNF880	45	1	NM_001145434	exon4	c.T1071C	p.C357C	TAAATGTGGCAAG	.	PASS	Atlas-SNP
PRAME	23532	hgsc.bcm.edu	37	22	22890492	22890492	+	Silent	SNP	G	G	A	rs13604	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	26	44	0	0.509804	0	G|0.903;A|0.097	0.097	strong	.	PRAME	78	.	NM_206954	exon6	c.C1527T	p.N509N	CAGCTAGTTAGGC	.	PASS	Atlas-SNP
C3orf18	51161	hgsc.bcm.edu	37	3	50598396	50598396	+	Silent	SNP	G	G	A	rs41291736	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	66	148	0	0.44898	0	G|0.908;A|0.092	0.092	strong	.	C3orf18	12	.	NM_016210	exon5	c.C360T	p.D120D	GGCGGCGTCCCGC	.	PASS	Atlas-SNP
STEAP1B	256227	hgsc.bcm.edu	37	7	22478207	22478207	+	Silent	SNP	G	G	T	rs2528843	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	28	62	0	0.4375	0	G|0.488;T|0.512	0.512	strong	.	STEAP1B	22	.	NM_001164460	exon5	c.C930A	p.A310A	AGGGCTGGCTGCT	.	PASS	Atlas-SNP
QSOX1	5768	hgsc.bcm.edu	37	1	180163390	180163390	+	Missense_Mutation	SNP	A	A	G	rs12371	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	86	146	0	0.494253	0	A|0.940;G|0.060	0.060	strong	.	QSOX1	79	.	NM_002826	exon11	c.A1331G	p.H444R	ACGTGCACTACTT	.	PASS	Atlas-SNP
RORA	6095	hgsc.bcm.edu	37	15	60789798	60789798	+	Silent	SNP	G	G	T	rs11071539	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	174	162	0	0.988636	0	G|0.056;T|0.944	0.944	strong	.	RORA	114	.	NM_134260	exon12	c.C1527A	p.T509T	TCTTAAGGTAGAC	.	PASS	Atlas-SNP
AGAP6	414189	hgsc.bcm.edu	37	10	51769799	51769799	+	Silent	SNP	C	C	T	rs61848275	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244	68	205	0	0.278689	0	C|0.500;T|0.500	0.500	weak	AGAP6,NS,carcinoma,0,1	AGAP6	53	1	NM_001077665	exon8	c.C1914T	p.V638V	TGTGGTCCTGGCG	.	scavenged	Atlas-SNP
FAM205A	259308	hgsc.bcm.edu	37	9	34725112	34725112	+	Missense_Mutation	SNP	C	C	T	rs200209883	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	436	176	475	0	0.40367	0	C|0.978;T|0.022	0.022	strong	FAM205A_ENST00000378788,NS,haematopoietic_neoplasm,0,2	FAM205A	45	2	NM_001141917	exon4	c.G2125A	p.A709T	CCACTGCCAGGAC	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145293515	145293515	+	Missense_Mutation	SNP	A	A	G	rs12565078	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	61	161	0	0.354651	0	A|0.731;G|0.269	0.269	strong	.	NBPF10	221	.	NM_001039703	exon1	c.A110G	p.N37S	TCAGAAACCTCAA	.	PASS	Atlas-SNP
MS4A15	219995	hgsc.bcm.edu	37	11	60531346	60531346	+	Missense_Mutation	SNP	T	T	G	rs1032939	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	28	58	0	0.430769	0	T|0.597;G|0.403	0.403	strong	.	MS4A15	37	.	NM_001098835	exon2	c.T140G	p.L47R	CACCGCTGGGGGC	.	PASS	Atlas-SNP
ACSBG2	81616	hgsc.bcm.edu	37	19	6156510	6156510	+	Missense_Mutation	SNP	A	A	G	rs33937754	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	100	195	0	0.478469	0	A|0.908;G|0.092	0.092	strong	.	ACSBG2	83	.	NM_030924	exon5	c.A455G	p.K152R	ATGCCAAAGTGAA	.	PASS	Atlas-SNP
MAML1	9794	hgsc.bcm.edu	37	5	179193598	179193598	+	Silent	SNP	C	C	T	rs3797776	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	36	96	0	0.28125	0	C|0.800;T|0.200	0.200	strong	.	MAML1	118	.	NM_014757	exon2	c.C1587T	p.S529S	AGGCAGCCCGGGG	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122372183	122372183	+	Missense_Mutation	SNP	G	G	A	rs77540055	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	17	73	0	0.320755	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
RHD	6007	hgsc.bcm.edu	37	1	25629896	25629896	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	101	154	0	0.408907	0	.	.	none	.	RHD	38	.	NM_001127691	exon6	c.G885T	p.M295I	TGCCATGGTGCTG	.	PASS	Atlas-SNP
SMG1	23049	hgsc.bcm.edu	37	16	18847416	18847416	+	Silent	SNP	G	G	A	rs3816919	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	57	103	0	0.459677	0	G|0.899;A|0.101	0.101	strong	.	SMG1	401	.	NM_015092	exon48	c.C7896T	p.S2632S	GAGCACGGAGCGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	27	74	0	0.457627	0	G|0.448;A|0.552	0.552	strong	.	DZIP1L	88	.	NM_001170538	exon7	c.C961T	p.R321W	GCTCCCGTGCCTG	.	PASS	Atlas-SNP
OGFOD1	55239	hgsc.bcm.edu	37	16	56500176	56500176	+	Silent	SNP	T	T	A	rs11544885	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	41	82	0	0.43617	0	T|0.961;A|0.039	0.039	strong	.	OGFOD1	31	.	NM_018233	exon5	c.T561A	p.I187I	CAGCATTGATGGT	.	PASS	Atlas-SNP
ZNF302	55900	hgsc.bcm.edu	37	19	35175592	35175592	+	Missense_Mutation	SNP	G	G	A	rs78654759		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	50	144	0	0.471698	0	G|0.500;A|0.500	0.500	weak	ZNF302,right_upper_lobe,carcinoma,+1,1	ZNF302	27	1	NM_018443	exon5	c.G650A	p.S217N	TCCTCAGTCGCCA	.	PASS	Atlas-SNP
WNK2	65268	hgsc.bcm.edu	37	9	95993215	95993215	+	Silent	SNP	C	C	T	rs34976687	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	107	99	0	1	0	C|0.953;T|0.047	0.047	strong	.	WNK2	277	.	NM_006648	exon3	c.C900T	p.S300S	CCGCAGCTGGTGC	.	PASS	Atlas-SNP
LAMB3	3914	hgsc.bcm.edu	37	1	209795909	209795909	+	Silent	SNP	T	T	C	rs3179860	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	126	143	0	0.992126	0	T|0.896;C|0.104	0.104	strong	.	LAMB3	136	.	NM_000228	exon18	c.A2673G	p.L891L	CTGGATTAGGAGC	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11786951	11786951	+	Silent	SNP	T	T	C	rs8070256	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	120	106	0	1	0	T|0.612;C|0.388	0.388	strong	DNAH9,NS,carcinoma,0,1	DNAH9	695	1	NM_001372	exon56	c.T10855C	p.L3619L	AAAACGTTGGAAG	.	PASS	Atlas-SNP
RBMS1	5937	hgsc.bcm.edu	37	2	161174693	161174693	+	Silent	SNP	C	C	T	rs1430	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	24	65	0	0.45283	0	C|0.733;T|0.267	0.267	strong	RBMS1_ENST00000348849,caecum,carcinoma,0,1	RBMS1	34	1	NM_016836	exon3	c.G297A	p.T99T	TTTGTTCGTTGTC	.	PASS	Atlas-SNP
VIPR1	7433	hgsc.bcm.edu	37	3	42568935	42568935	+	Silent	SNP	C	C	T	rs201579976	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	35	74	0	0.660377	0	C|0.999;T|0.001	0.001	strong	VIPR1,NS,carcinoma,0,1	VIPR1	45	1	NM_004624	exon5	c.C450T	p.Y150Y	TGGCTACGGCCTG	.	PASS	Atlas-SNP
TANC1	85461	hgsc.bcm.edu	37	2	160074132	160074132	+	Silent	SNP	G	G	T	rs373000954		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	82	106	0	0.546667	0	.	.	weak	TANC1,NS,NS,+2,1	TANC1	157	1	NM_033394	exon20	c.G3369T	p.G1123G	CCAGGGGCATTGG	.	PASS	Atlas-SNP
CYP8B1	1582	hgsc.bcm.edu	37	3	42915878	42915878	+	Silent	SNP	C	C	T	rs735320	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	119	140	0	0.983471	0	C|0.861;T|0.139	0.139	strong	.	CYP8B1	59	.	NM_004391	exon1	c.G1431A	p.P477P	GCGCTGCGGGTCA	.	PASS	Atlas-SNP
COL19A1	1310	hgsc.bcm.edu	37	6	70866609	70866609	+	Silent	SNP	C	C	T	rs2229799	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	58	102	0	0.491525	0	C|0.481;T|0.519	0.519	strong	.	COL19A1	232	.	NM_001858	exon34	c.C2286T	p.G762G	GAAAGGCGATGAG	.	PASS	Atlas-SNP
MICB	4277	hgsc.bcm.edu	37	6	31474000	31474000	+	Missense_Mutation	SNP	G	G	A	rs1051788	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	246	72	233	0	0.292683	0	A|0.285;G|0.715	0.285	strong	.	MICB	26	.	NM_005931	exon3	c.G406A	p.D136N	TACTACGATGGGG	.	PASS	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	37	7	157959636	157959636	+	Silent	SNP	G	G	A	rs1130498	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	40	94	0	0.45977	0	G|0.341;A|0.659	0.659	strong	PTPRN2,NS,carcinoma,0,1	PTPRN2	243	1	NM_130843	exon6	c.C897T	p.S299S	TGTGCTGGAGGGG	.	PASS	Atlas-SNP
ISG20	3669	hgsc.bcm.edu	37	15	89182702	89182702	+	Silent	SNP	T	T	C	rs35008759	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	52	54	0	0.571429	0	A|0.000;C|0.017;T|0.983	0.017	strong	.	ISG20	17	.	NM_002201	exon2	c.T105C	p.G35G	CCACGGTGCTGTG	.	PASS	Atlas-SNP
ACSM2B	348158	hgsc.bcm.edu	37	16	20554294	20554294	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	378	5	363	1	0.0132275	0.00275482	.	.	none	ACSM2B,NS,carcinoma,+1,1	ACSM2B	121	1	NM_182617	exon13	c.A1451G	p.K484R	GGGTGCTTCATCA	.	scavenged	Atlas-SNP
CNTN4	152330	hgsc.bcm.edu	37	3	3076351	3076351	+	Missense_Mutation	SNP	G	G	A	rs374090181		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	2	116	0	0.0151515	0	.	.	weak	CNTN4_ENST00000418658,NS,malignant_melanoma,0,4	CNTN4	335	4	NM_175607	exon17	c.G1819A	p.E607K	ATAGACGAAATCA	.	scavenged	Atlas-SNP
KRTAP6-3	337968	hgsc.bcm.edu	37	21	31964916	31964916	+	Missense_Mutation	SNP	A	A	C	rs9305426	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	217	273	2	0.955947	0.00732601	A|0.451;C|0.549	0.549	strong	.	KRTAP6-3	30	.	NM_181605	exon1	c.A152C	p.Y51S	TTGGCTATGGAGG	.	PASS	Atlas-SNP
SDR42E1	93517	hgsc.bcm.edu	37	16	82033810	82033810	+	Nonsense_Mutation	SNP	G	G	A	rs11542462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	15	18	0	1	0	G|0.916;A|0.084	0.084	strong	SDR42E1,colon,carcinoma,0,1	SDR42E1	26	1	NM_145168	exon3	c.C88T	p.Q30X	CATTTTGGTTCAG	.	scavenged	Atlas-SNP
FHAD1	114827	hgsc.bcm.edu	37	1	15653563	15653563	+	Silent	SNP	C	C	T	rs3765357	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	257	127	323	0	0.494163	0	C|0.799;T|0.201	0.201	strong	.	FHAD1	78	.	NM_052929	exon12	c.C1482T	p.H494H	GGAGCACTTCAGA	.	PASS	Atlas-SNP
BMP8A	353500	hgsc.bcm.edu	37	1	39988708	39988708	+	Silent	SNP	A	A	G	rs2889739	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	59	153	0	0.393333	0	A|0.945;G|0.055	0.055	strong	.	BMP8A	24	.	NM_181809	exon6	c.A978G	p.S326S	CTACTCAGCCTAT	.	PASS	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26194045	26194045	+	Silent	SNP	T	T	C	rs738643	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	139	119	1	0.985816	0.00840336	T|0.410;C|0.590	0.590	strong	.	MYO18B	322	.	NM_032608	exon12	c.T2502C	p.G834G	CCTGGGTGCGGCG	.	PASS	Atlas-SNP
VSX1	30813	hgsc.bcm.edu	37	20	25059381	25059381	+	Silent	SNP	A	A	T	rs56157240	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	70	165	0	0.510949	0	A|0.749;T|0.251	0.251	strong	.	VSX1	20	.	NM_199425	exon3	c.T711A	p.P237P	TAGAGAAGGGACT	.	PASS	Atlas-SNP
SEMA5A	9037	hgsc.bcm.edu	37	5	9190404	9190404	+	Silent	SNP	G	G	A	rs1806095	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	100	109	0	0.990099	0	G|0.771;A|0.229	0.229	strong	.	SEMA5A	236	.	NM_003966	exon11	c.C1248T	p.L416L	GTGGACGAGCGCT	.	PASS	Atlas-SNP
MSL1	339287	hgsc.bcm.edu	37	17	38282624	38282624	+	Silent	SNP	C	C	T	rs28526298	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	64	152	0	0.453901	0	C|0.938;T|0.062	0.062	strong	.	MSL1	21	.	NM_001012241	exon3	c.C168T	p.P56P	CAAGCCCTTCTCA	.	PASS	Atlas-SNP
SEC61A2	55176	hgsc.bcm.edu	37	10	12191933	12191933	+	Silent	SNP	C	C	T	rs10466280	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	36	91	0	0.4	0	C|0.580;T|0.420	0.420	strong	.	SEC61A2	48	.	NM_001142627	exon6	c.C435T	p.A145A	GGGTGCCGGAATC	.	PASS	Atlas-SNP
PRPSAP2	5636	hgsc.bcm.edu	37	17	18775900	18775900	+	Silent	SNP	A	A	G	rs4393623	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	74	109	0	0.606557	0	A|0.478;G|0.522	0.522	strong	PRPSAP2,NS,carcinoma,0,1	PRPSAP2	23	1	NM_001243940	exon4	c.A177G	p.T59T	AGAAACAAGAGTA	.	PASS	Atlas-SNP
CDSN	1041	hgsc.bcm.edu	37	6	31088145	31088145	+	Missense_Mutation	SNP	T	T	A	rs3095318	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	299	119	225	0	0.397993	0	T|0.831;A|0.169	0.169	strong	CDSN,NS,carcinoma,0,1	CDSN	48	1	NM_001264	exon1	c.A52T	p.M18L	GTGCCATCATCCC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092954	1092954	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	7	124	0	0.0514706	0	.	.	none	MUC2_ENST00000441003,rectum,carcinoma,0,4	MUC2	614	4	NM_002457	exon30	c.G4773A	p.T1591T	CACTACGGTGACC	.	PASS	Atlas-SNP
SGK494	0	hgsc.bcm.edu	37	17	26938651	26938651	+	Missense_Mutation	SNP	C	C	T	rs34026109	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	53	76	0	0.540816	0	C|0.980;T|0.020	0.020	strong	.	.	.	.	NM_001174103	exon9	c.G745A	p.G249S	ACAGACCAAAGTC	.	PASS	Atlas-SNP
MNS1	55329	hgsc.bcm.edu	37	15	56756285	56756285	+	Missense_Mutation	SNP	T	T	G	rs1715919	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	79	162	0	0.541096	0	G|0.074;N|0.000	0.074	strong	.	MNS1	39	.	NM_018365	exon2	c.A164C	p.Q55P	AGAAATTGCTTGC	.	PASS	Atlas-SNP
KIF24	347240	hgsc.bcm.edu	37	9	34310927	34310927	+	Missense_Mutation	SNP	T	T	C	rs10972048	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	294	294	370	2	1	0.00540541	T|0.590;C|0.410	0.410	strong	.	KIF24	64	.	NM_194313	exon2	c.A418G	p.M140V	GTAGCATGTGTTC	.	PASS	Atlas-SNP
FGFBP2	83888	hgsc.bcm.edu	37	4	15964670	15964670	+	Missense_Mutation	SNP	C	C	T	rs35496730	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	79	82	0	0.975309	0	C|0.872;T|0.128	0.128	strong	.	FGFBP2	22	.	NM_031950	exon1	c.G83A	p.S28N	CCAGTGCTTCCTT	.	PASS	Atlas-SNP
AMIGO2	347902	hgsc.bcm.edu	37	12	47471439	47471439	+	Silent	SNP	G	G	A	rs2269828	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	341	337	308	0	0.98827	0	G|0.750;A|0.250	0.250	strong	.	AMIGO2	50	.	NM_181847	exon2	c.C1347T	p.P449P	ACTAGCGGGGCCA	.	PASS	Atlas-SNP
FLRT3	23767	hgsc.bcm.edu	37	20	14306953	14306953	+	Missense_Mutation	SNP	G	G	T	rs6079391	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	74	207	1	0.402174	0.00483092	G|0.667;T|0.333	0.333	strong	FLRT3,colon,carcinoma,0,1	FLRT3	67	1	NM_013281	exon2	c.C1200A	p.H400Q	GGTTTGGTGATCC	.	scavenged	Atlas-SNP
DRAXIN	374946	hgsc.bcm.edu	37	1	11771988	11771988	+	Silent	SNP	A	A	G	rs17037327	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	33	62	0	0.464789	0	A|0.885;G|0.115	0.115	strong	.	.	.	.	NM_198545	exon4	c.A723G	p.L241L	AGACTTAAAACCT	.	PASS	Atlas-SNP
GALNT7	51809	hgsc.bcm.edu	37	4	174090004	174090004	+	Silent	SNP	G	G	A	rs3733477	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	78	104	0	0.975	0	T|0.000;G|0.353;A|0.647	0.647	strong	.	GALNT7	61	.	NM_017423	exon1	c.G18A	p.G6G	GATTGGGTTCATC	.	PASS	Atlas-SNP
CPA1	1357	hgsc.bcm.edu	37	7	130023561	130023561	+	Missense_Mutation	SNP	G	G	A	rs34474469	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	67	136	0	0.468531	0	G|0.979;A|0.021	0.021	strong	.	CPA1	73	.	NM_001868	exon6	c.G622A	p.A208T	TTCACCGCCATTC	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	37	2	142567910	142567910	+	Missense_Mutation	SNP	T	T	C	rs12990449	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	277	158	248	0	0.570397	0	C|0.208;N|0.000	0.208	strong	.	LRP1B	1315	.	NM_018557	exon2	c.A143G	p.Q48R	CAGCTCTGGGAGA	.	PASS	Atlas-SNP
SLC16A4	9122	hgsc.bcm.edu	37	1	110924353	110924353	+	Silent	SNP	G	G	A	rs3738750	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	299	121	331	0	0.404682	0	G|0.839;A|0.161	0.161	strong	SLC16A4,NS,carcinoma,0,2	SLC16A4	47	2	NM_004696	exon4	c.C285T	p.F95F	AACAACGAAAGCC	.	PASS	Atlas-SNP
ZNF443	10224	hgsc.bcm.edu	37	19	12541547	12541547	+	Missense_Mutation	SNP	T	T	G	rs10402252	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	63	116	0	0.533898	0	T|0.615;G|0.385	0.385	strong	.	ZNF443	63	.	NM_005815	exon4	c.A1439C	p.K480T	CCAAGTTTGCATT	.	PASS	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238244781	238244781	+	Missense_Mutation	SNP	T	T	C	rs11690358	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	44	66	0	0.511628	0	T|0.934;C|0.066	0.066	strong	.	COL6A3	608	.	NM_004369	exon40	c.A8962G	p.M2988V	TACCCATGGGCTT	.	PASS	Atlas-SNP
STARD3	10948	hgsc.bcm.edu	37	17	37814080	37814080	+	Missense_Mutation	SNP	G	G	A	rs1877031	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	241	222	0	1	0	G|0.499;T|0.004	.	strong	STARD3,colon,carcinoma,0,2	STARD3	33	2	NM_006804	exon4	c.G350A	p.R117Q	TGCTGCGGCTCCG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	138	108	0	1	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
USP18	11274	hgsc.bcm.edu	37	22	18650682	18650682	+	Missense_Mutation	SNP	C	C	T	rs3180408	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268	268	270	0	1	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
FASTKD1	79675	hgsc.bcm.edu	37	2	170411698	170411698	+	Missense_Mutation	SNP	C	C	G	rs12618227	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	24	54	0	0.489796	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
CARD11	84433	hgsc.bcm.edu	37	7	2969680	2969680	+	Silent	SNP	G	G	A	rs1621509	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	58	104	0	0.471545	0	G|0.852;A|0.148	0.148	strong	.	CARD11	339	.	NM_032415	exon12	c.C1599T	p.D533D	GCTGGCGTCCGTG	.	PASS	Atlas-SNP
ACSF3	197322	hgsc.bcm.edu	37	16	89199651	89199651	+	Silent	SNP	G	G	A	rs12447947	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	23	68	0	0.328571	0	G|0.746;A|0.254	0.254	strong	.	ACSF3	40	.	NM_174917	exon8	c.G1347A	p.L449L	CACCCTGGATGGC	.	PASS	Atlas-SNP
HID1	283987	hgsc.bcm.edu	37	17	72949146	72949146	+	Silent	SNP	C	C	T	rs2307010	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	103	195	0	0.476852	0	C|0.809;T|0.191	0.191	strong	C17orf28,colon,carcinoma,0,1	.	.	1	NM_030630	exon16	c.G2007A	p.P669P	GGTGGACGGTCGC	.	PASS	Atlas-SNP
NOS1	4842	hgsc.bcm.edu	37	12	117693817	117693817	+	Missense_Mutation	SNP	G	G	A	rs11068428	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	38	65	0	0.567164	0	G|0.651;A|0.349	0.349	strong	.	NOS1	240	.	NM_001204218	exon17	c.C2557T	p.P853S	TACGGGGAAAGAA	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744919	54744919	+	Missense_Mutation	SNP	T	T	A	rs61734504	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	666	171	655	1	0.256757	0.00152672	T|0.968;A|0.032	0.032	strong	LILRA6,NS,carcinoma,-1,1	LILRA6	75	1	NM_024318	exon5	c.A743T	p.D248V	CCGACATCAGAGC	.	PASS	Atlas-SNP
LRRC16A	55604	hgsc.bcm.edu	37	6	25600602	25600602	+	Silent	SNP	A	A	G	rs9885888	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	109	129	0	0.514151	0	A|0.948;G|0.052	0.052	strong	.	LRRC16A	168	.	NM_001173977	exon33	c.A3180G	p.K1060K	AAAGAAAAAGCGA	.	PASS	Atlas-SNP
SLC12A6	9990	hgsc.bcm.edu	37	15	34542872	34542872	+	Silent	SNP	C	C	G	rs17236798	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	267	129	260	0	0.483146	0	C|0.822;G|0.178	0.178	strong	.	SLC12A6	205	.	NM_133647	exon11	c.G1551C	p.P517P	ACCAATCGGAATA	.	PASS	Atlas-SNP
CYP2C8	1558	hgsc.bcm.edu	37	10	96827030	96827030	+	Missense_Mutation	SNP	C	C	T	rs11572080	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	120	244	0	0.478088	0	C|0.931;T|0.069	0.069	strong	.	CYP2C8	73	.	NM_000770	exon3	c.G416A	p.R139K	ATGCTCCTCTTCC	.	PASS	Atlas-SNP
C15orf57	90416	hgsc.bcm.edu	37	15	40855210	40855210	+	Missense_Mutation	SNP	T	T	A	rs10152546	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	36	78	0	0.467532	0	T|0.660;A|0.340	0.340	strong	C15orf57,NS,carcinoma,0,1	C15orf57	20	1	NM_001080791	exon2	c.A32T	p.K11I	AACATTTTCATTT	.	PASS	Atlas-SNP
ZNF211	10520	hgsc.bcm.edu	37	19	58153009	58153009	+	Silent	SNP	C	C	T	rs3746217	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	34	70	0	0.576271	0	C|0.789;T|0.211	0.211	strong	.	ZNF211	78	.	NM_001265597	exon5	c.C1350T	p.I450I	CCTGATCTACCAC	.	PASS	Atlas-SNP
WBP4	11193	hgsc.bcm.edu	37	13	41646958	41646958	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	47	117	0	0.447619	0	.	.	none	.	WBP4	40	.	NM_007187	exon7	c.A527G	p.D176G	GTGAAGATGGTTT	.	PASS	Atlas-SNP
VAV3	10451	hgsc.bcm.edu	37	1	108185301	108185301	+	Missense_Mutation	SNP	C	C	G	rs12403266	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	52	101	0	0.536082	0	C|0.866;G|0.134	0.134	strong	VAV3_ENST00000415432,colon,carcinoma,-1,6	VAV3	176	6	NM_006113	exon20	c.G1854C	p.Q618H	CTGGAGCTGTAAA	.	PASS	Atlas-SNP
TRIM41	90933	hgsc.bcm.edu	37	5	180661468	180661468	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	34	122	0	0.425	0	.	.	none	.	TRIM41	96	.	NM_033549	exon6	c.G1586A	p.R529H	CCTCGCGCCATCA	.	PASS	Atlas-SNP
COL13A1	1305	hgsc.bcm.edu	37	10	71678058	71678058	+	Silent	SNP	C	C	G	rs2274181	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	25	44	0	0.609756	0	C|0.804;G|0.196	0.196	strong	COL13A1_ENST00000398978,NS,carcinoma,+2,2	COL13A1	133	2	NM_001130103	exon19	c.C1014G	p.A338A	AATTGCCGTGGCT	.	PASS	Atlas-SNP
SPNS3	201305	hgsc.bcm.edu	37	17	4391153	4391153	+	Silent	SNP	A	A	G	rs333122	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	69	147	0	0.456954	0	A|0.784;G|0.216	0.216	strong	SPNS3,NS,carcinoma,0,1	SPNS3	52	1	NM_182538	exon12	c.A1503G	p.L501L	AGGCCTACTTTCG	.	PASS	Atlas-SNP
BRDT	676	hgsc.bcm.edu	37	1	92445257	92445257	+	Missense_Mutation	SNP	C	C	G	rs3088232	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	63	181	0	0.357955	0	C|0.838;G|0.162	0.162	strong	.	BRDT	133	.	NM_001242806	exon8	c.C1242G	p.N414K	AGGGAACTCTTCT	.	PASS	Atlas-SNP
FAM20A	54757	hgsc.bcm.edu	37	17	66596463	66596463	+	Silent	SNP	C	C	T	rs986099	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	44	109	0	0.578947	0	C|0.816;T|0.184	0.184	strong	.	FAM20A	35	.	NM_017565	exon1	c.G345A	p.S115S	CAGGAGCGAGTCC	.	PASS	Atlas-SNP
ZIM3	114026	hgsc.bcm.edu	37	19	57646570	57646570	+	Missense_Mutation	SNP	T	T	C	rs4801433	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	78	195	0	0.445714	0	C|0.425;N|0.000	0.425	strong	.	ZIM3	107	.	NM_052882	exon5	c.A1135G	p.I379V	GTTGAATGAGGTT	.	PASS	Atlas-SNP
RARS	5917	hgsc.bcm.edu	37	5	167919726	167919726	+	Silent	SNP	A	A	G	rs2305727	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	175	199	0	1	0	A|0.881;G|0.119	0.119	strong	RARS,NS,carcinoma,+1,1	RARS	58	1	NM_002887	exon3	c.A243G	p.Q81Q	CCTACAAGAGGTC	.	PASS	Atlas-SNP
AGTR2	186	hgsc.bcm.edu	37	X	115303837	115303837	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	52	343	0	0.287293	0	.	.	none	.	AGTR2	62	.	NM_000686	exon3	c.A304C	p.T102P	TGGGCAACCTATT	.	PASS	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	37	3	113379865	113379865	+	Missense_Mutation	SNP	G	G	C	rs9866806	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	81	83	0	0.987805	0	G|0.747;C|0.253	0.253	strong	KIAA2018,NS,carcinoma,+1,1	KIAA2018	180	1	NM_001009899	exon7	c.C664G	p.P222A	GAACAGGCTGGTT	.	PASS	Atlas-SNP
OR5W2	390148	hgsc.bcm.edu	37	11	55681336	55681336	+	Silent	SNP	G	G	A	rs11231529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	81	145	0	0.522581	0	G|0.677;A|0.323	0.323	strong	.	OR5W2	112	.	NM_001001960	exon1	c.C723T	p.C241C	GGAAGTGCATGTA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	82	206	0	0.471264	0	G|0.801;N|0.001	.	strong	.	NUDT7	47	.	NM_001243657	exon3	c.G299A	p.R100H	GTCTCCGTCCTCA	.	PASS	Atlas-SNP
PRR5-ARHGAP8	553158	hgsc.bcm.edu	37	22	45255688	45255688	+	Missense_Mutation	SNP	C	C	T	rs73176189	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	43	85	0	0.551282	0	C|0.998;T|0.002	0.002	strong	PRR5-ARHGAP8,caecum,carcinoma,0,2	PRR5-ARHGAP8	53	2	NM_181334	exon14	c.C1321T	p.R441C	GTCCTCCGCTACC	.	PASS	Atlas-SNP
NEK1	4750	hgsc.bcm.edu	37	4	170477125	170477125	+	Missense_Mutation	SNP	G	G	A	rs34540355	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	148	102	0	1	0	G|0.975;A|0.025	0.025	strong	.	NEK1	203	.	NM_012224	exon16	c.C1388T	p.A463V	CATTTAGCTTCAT	.	PASS	Atlas-SNP
SLX4	84464	hgsc.bcm.edu	37	16	3639827	3639827	+	Missense_Mutation	SNP	G	G	A	rs3810813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	24	56	0	0.421053	0	G|0.943;A|0.057	0.057	strong	SLX4,colon,carcinoma,0,1	SLX4	173	1	NM_032444	exon12	c.C3812T	p.S1271F	GTCTGGGAAGAAC	.	PASS	Atlas-SNP
CHI3L1	1116	hgsc.bcm.edu	37	1	203152801	203152801	+	Missense_Mutation	SNP	T	T	C	rs880633	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	102	91	0	1	0	C|0.391;N|0.001	0.391	strong	.	CHI3L1	51	.	NM_001276	exon5	c.A433G	p.R145G	TGTCTCTCCGTCC	.	PASS	Atlas-SNP
OR5D13	390142	hgsc.bcm.edu	37	11	55541284	55541284	+	Missense_Mutation	SNP	G	G	A	rs11230983	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	362	181	389	1	0.5	0.00257069	G|0.898;A|0.102	0.102	strong	OR5D13,caecum,carcinoma,0,2	OR5D13	96	2	NM_001001967	exon1	c.G371A	p.R124H	ATGACCGTTTTGT	.	PASS	Atlas-SNP
OR13C5	138799	hgsc.bcm.edu	37	9	107361460	107361460	+	Missense_Mutation	SNP	G	G	A	rs7025570	bycluster;byfrequency;by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	588	92	719	1	0.156463	0.00139082	G|0.417;A|0.583	0.583	strong	.	OR13C5	60	.	NM_001004482	exon1	c.C235T	p.P79S	TGGAGGGAATAGA	.	PASS	Atlas-SNP
NARFL	64428	hgsc.bcm.edu	37	16	784765	784765	+	Silent	SNP	C	C	T	rs9928077	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	95	164	0	0.508021	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
PCDHA5	56143	hgsc.bcm.edu	37	5	140203432	140203432	+	Missense_Mutation	SNP	C	C	T	rs4141841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	48	296	0	0.363636	0	C|0.471;T|0.529	0.529	strong	.	PCDHA5	361	.	NM_018908	exon1	c.C2072T	p.A691V	AGGCTGCCCTGGT	.	PASS	Atlas-SNP
SIGLEC10	89790	hgsc.bcm.edu	37	19	51920196	51920196	+	Missense_Mutation	SNP	G	G	T	rs77553517	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	30	180	0	0.151515	0	.	.	weak	.	SIGLEC10	112	.	NM_001171157	exon3	c.C430A	p.Q144K	GCTTCTGAGTCAG	.	PASS	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	37	4	175899091	175899091	+	Missense_Mutation	SNP	A	A	T	rs199709256	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	48	129	1	0.26087	0.00775194	A|0.999;T|0.001	0.001	weak	ADAM29,NS,lymphoid_neoplasm,0,1	ADAM29	262	1	NM_001130703	exon4	c.A2415T	p.Q805H	GAGGCAACCTCAG	.	scavenged	Atlas-SNP
OR4N4	283694	hgsc.bcm.edu	37	15	22383249	22383249	+	Missense_Mutation	SNP	G	G	A	rs112081824	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	87	313	0	0.327068	0	G|0.983;A|0.017	0.017	strong	.	OR4N4	108	.	NM_001005241	exon1	c.G777A	p.M259I	CTACATGTGCCCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	47	146	0	0.398305	0	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	.	PASS	Atlas-SNP
TRPA1	8989	hgsc.bcm.edu	37	8	72977703	72977703	+	Missense_Mutation	SNP	C	C	T	rs920829	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	263	124	258	0	0.471483	0	C|0.798;T|0.202	0.202	strong	.	TRPA1	256	.	NM_007332	exon4	c.G535A	p.E179K	ATGCTTCGCTATT	.	PASS	Atlas-SNP
NT5C3A	0	hgsc.bcm.edu	37	7	33075573	33075573	+	Silent	SNP	A	A	G	rs17170223	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	50	156	0	0.47619	0	A|0.971;G|0.029	0.029	strong	.	.	.	.	NM_001002009	exon2	c.T9C	p.N3N	CTCTTGATTAGTC	.	PASS	Atlas-SNP
SHE	126669	hgsc.bcm.edu	37	1	154474131	154474131	+	Silent	SNP	C	C	G	rs4845635	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	91	0	1	0	C|0.222;G|0.778	0.778	strong	SHE,colon,carcinoma,-2,3	SHE	41	3	NM_001010846	exon1	c.G372C	p.R124R	CGTGGCCCGGGAG	.	PASS	Atlas-SNP
NPAS2	4862	hgsc.bcm.edu	37	2	101587455	101587455	+	Silent	SNP	C	C	T	rs1562313	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	61	109	0	0.423611	0	C|0.766;T|0.234	0.234	strong	.	NPAS2	88	.	NM_002518	exon12	c.C1059T	p.Y353Y	CAGTTACGCAGAT	.	PASS	Atlas-SNP
CCDC96	257236	hgsc.bcm.edu	37	4	7044600	7044600	+	Silent	SNP	G	G	A	rs2359010	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	22	27	0	0.814815	0	G|0.816;A|0.184	0.184	strong	CCDC96,NS,carcinoma,0,1	CCDC96	34	1	NM_153376	exon1	c.C66T	p.A22A	CCGCGCGGCCAGG	.	PASS	Atlas-SNP
TOMM40	10452	hgsc.bcm.edu	37	19	45396144	45396144	+	Silent	SNP	C	C	T	rs11556505	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	125	224	0	0.52521	0	C|0.866;T|0.134	0.134	strong	.	TOMM40	13	.	NM_001128917	exon3	c.C393T	p.F131F	CCACTTCGGGGTC	.	PASS	Atlas-SNP
ZNF862	643641	hgsc.bcm.edu	37	7	149559273	149559273	+	Silent	SNP	C	C	T	rs2074700	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	55	96	0	0.504587	0	C|0.546;T|0.454	0.454	strong	.	ZNF862	97	.	NM_001099220	exon7	c.C3024T	p.L1008L	CATGCTCTGCAAA	.	PASS	Atlas-SNP
PCDHA7	56141	hgsc.bcm.edu	37	5	140214381	140214381	+	Missense_Mutation	SNP	G	G	A	rs10067182	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	494	125	536	0	0.253036	0	G|0.399;A|0.601	0.601	strong	PCDHA7_ENST00000525929,NS,carcinoma,-1,2	PCDHA7	367	2	NM_031852	exon1	c.G413A	p.R138K	CACAAAGGAATCT	.	PASS	Atlas-SNP
AK2	204	hgsc.bcm.edu	37	1	33502357	33502357	+	Missense_Mutation	SNP	C	C	T	rs199641857	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	14	339	0	0.0611354	0	.	.	weak	.	AK2	27	.	NM_001199199	exon1	c.G73A	p.G25R	CGGCCCCGGGAGG	.	PASS	Atlas-SNP
DENND1A	57706	hgsc.bcm.edu	37	9	126144390	126144390	+	Missense_Mutation	SNP	G	G	T	rs189947178	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	30	54	0	0.652174	0	G|0.993;T|0.007	0.007	strong	.	DENND1A	112	.	NM_020946	exon22	c.C2351A	p.A784D	AGGAGGGCGAGCA	.	PASS	Atlas-SNP
PLS3	5358	hgsc.bcm.edu	37	X	114863593	114863593	+	Silent	SNP	T	T	A	rs140121121	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	128	265	1	1	0.00377358	T|0.990;A|0.010	0.010	strong	.	PLS3	60	.	NM_005032	exon4	c.T321A	p.G107G	TCTGGGTGGAACT	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63954029	63954029	+	Silent	SNP	C	C	T	rs2228511	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	183	195	1	0.994565	0.00512821	C|0.332;T|0.668	0.668	strong	.	HERC1	624	.	NM_003922	exon45	c.G9093A	p.P3031P	GTAGTACGGATTT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	94	189	0	0.502674	0	A|0.790;G|0.209	0.209	strong	.	SCEL	85	.	NM_144777	exon24	c.A1439G	p.K480R	CTGTCAAAAACAC	.	PASS	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79059040	79059040	+	Silent	SNP	A	A	G	rs199919711	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	8	78	0	0.0583942	0	A|0.999;G|0.001	0.001	weak	ADAMTS7,NS,carcinoma,-1,5	ADAMTS7	142	5	NM_014272	exon19	c.T3213C	p.N1071N	GTGGAAATTGATG	.	scavenged	Atlas-SNP
SPATA5	166378	hgsc.bcm.edu	37	4	123868456	123868456	+	Silent	SNP	C	C	T	rs6534369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	45	75	0	0.46875	0	C|0.934;T|0.066	0.066	strong	.	SPATA5	62	.	NM_145207	exon9	c.C1527T	p.L509L	TGCTCTCCGAAGA	.	PASS	Atlas-SNP
SFTPC	6440	hgsc.bcm.edu	37	8	22021517	22021517	+	Missense_Mutation	SNP	G	G	A	rs1124	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	91	194	0	0.484043	0	G|0.748;A|0.252	0.252	strong	.	SFTPC	19	.	NM_003018	exon5	c.G557A	p.S186N	CCGTGAGCACCCT	.	PASS	Atlas-SNP
EHMT1	79813	hgsc.bcm.edu	37	9	140638416	140638416	+	Silent	SNP	G	G	A	rs1129767	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	50	41	0	1	0	G|0.862;A|0.138	0.138	strong	EHMT1_ENST00000460843,colon,carcinoma,+1,2	EHMT1	196	2	NM_001145527	exon6	c.G1044A	p.S348S	GGACTCGGATGAG	.	PASS	Atlas-SNP
HS1BP3	64342	hgsc.bcm.edu	37	2	20824498	20824498	+	Missense_Mutation	SNP	C	C	T	rs2305458	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	58	0	1	0	C|0.551;T|0.449	0.449	strong	.	HS1BP3	33	.	NM_022460	exon5	c.G778A	p.V260M	GGTCCACGGATGA	.	PASS	Atlas-SNP
KLHL14	57565	hgsc.bcm.edu	37	18	30350165	30350165	+	Silent	SNP	G	G	A	rs61737324	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	51	191	0	0.359155	0	G|0.934;A|0.066	0.066	strong	.	KLHL14	92	.	NM_020805	exon2	c.C390T	p.C130C	GGACGAGCAGCCC	.	PASS	Atlas-SNP
BTRC	8945	hgsc.bcm.edu	37	10	103285900	103285900	+	Silent	SNP	C	C	T	rs17767748	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	250	180	0	0.996016	0	C|0.934;T|0.066	0.066	strong	.	BTRC	64	.	NM_033637	exon6	c.C687T	p.I229I	GCTTATCGAGAGA	.	PASS	Atlas-SNP
AGAP1	116987	hgsc.bcm.edu	37	2	236708166	236708166	+	Silent	SNP	C	C	T	rs2292708	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	52	65	0	0.490566	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
TGFBI	7045	hgsc.bcm.edu	37	5	135382989	135382989	+	Silent	SNP	G	G	C	rs1442	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	93	156	0	0.624161	0	G|0.651;C|0.349	0.349	strong	.	TGFBI	76	.	NM_000358	exon6	c.G651C	p.L217L	CCGGCTGCTGAAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	32	76	0	0.438356	0	G|0.420;T|0.580	0.580	strong	.	ALKBH3	33	.	NM_139178	exon9	c.G726T	p.G242G	TCATGGGACCTTG	.	PASS	Atlas-SNP
USP17L2	377630	hgsc.bcm.edu	37	8	11995062	11995062	+	Missense_Mutation	SNP	G	G	A	rs75807755	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	46	187	0	0.541176	0	G|0.841;A|0.159	0.159	strong	USP17L2,NS,carcinoma,0,1	USP17L2	47	1	NM_201402	exon1	c.C1208T	p.A403V	TGCGTTGCTCGCC	.	PASS	Atlas-SNP
WDR93	56964	hgsc.bcm.edu	37	15	90248819	90248819	+	Silent	SNP	A	A	T	rs17238056	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	195	241	0	0.994898	0	A|0.382;T|0.618	0.618	strong	.	WDR93	63	.	NM_020212	exon4	c.A531T	p.G177G	GGAAGGACTTTAC	.	PASS	Atlas-SNP
SH2D4B	387694	hgsc.bcm.edu	37	10	82363404	82363404	+	Missense_Mutation	SNP	A	A	G	rs7075840	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	38	119	1	0.408602	0.00840336	A|0.661;G|0.339	0.339	strong	SH2D4B,NS,carcinoma,0,1	SH2D4B	44	1	NM_207372	exon5	c.A713G	p.H238R	ACCGACACCACTC	.	scavenged	Atlas-SNP
ASPM	259266	hgsc.bcm.edu	37	1	197094030	197094030	+	Silent	SNP	C	C	T	rs6676084	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	82	156	0	0.522293	0	C|0.754;N|0.000	.	strong	.	ASPM	444	.	NM_001206846	exon12	c.G3138A	p.R1046R	AAGCAACCTGAGA	.	PASS	Atlas-SNP
CD44	960	hgsc.bcm.edu	37	11	35222681	35222681	+	Silent	SNP	C	C	T	rs35356320	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	45	80	0	0.56962	0	C|0.956;T|0.044	0.044	strong	.	CD44	48	.	NM_000610	exon8	c.C975T	p.T325T	CTGGACCCAGTGG	.	PASS	Atlas-SNP
ZBTB21	49854	hgsc.bcm.edu	37	21	43413158	43413158	+	Silent	SNP	C	C	T	rs147318145	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	53	119	0	0.495327	0	C|0.983;T|0.017	0.017	strong	.	.	.	.	NM_001098402	exon3	c.G1047A	p.Q349Q	AGGAACCTGGCTA	.	PASS	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	37	6	32610401	32610401	+	Missense_Mutation	SNP	G	G	A	rs9272785	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	94	257	0	0.353383	0	G|0.834;A|0.166	0.166	strong	.	HLA-DQA1	52	.	NM_002122	exon4	c.G628A	p.A210T	ATTCCAGCCCCTA	.	PASS	Atlas-SNP
PASD1	139135	hgsc.bcm.edu	37	X	150840742	150840742	+	Missense_Mutation	SNP	G	G	A	rs41312626	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	98	177	0	0.98	0	G|0.984;A|0.016	0.016	strong	.	PASD1	286	.	NM_173493	exon14	c.G1525A	p.V509M	AGGAAGGTGCAGA	.	PASS	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	37	6	90408589	90408589	+	Silent	SNP	A	A	G	rs3736984	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	18	76	0	0.327273	0	A|0.865;G|0.135	0.135	strong	.	MDN1	478	.	NM_014611	exon59	c.T9163C	p.L3055L	CCTTCAATGTGGA	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196837129	196837129	+	Missense_Mutation	SNP	G	G	C	rs73042525	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	121	271	0	0.472656	0	G|0.943;C|0.057	0.057	strong	.	DNAH7	512	.	NM_018897	exon16	c.C1895G	p.S632C	TTTTTGGAATCCA	.	PASS	Atlas-SNP
LRRC61	65999	hgsc.bcm.edu	37	7	150034184	150034184	+	Silent	SNP	T	T	C	rs3735170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	34	53	0	0.453333	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
ABHD15	116236	hgsc.bcm.edu	37	17	27889963	27889963	+	Silent	SNP	C	C	G	rs721479	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	55	121	0	0.45082	0	C|0.776;G|0.224	0.224	strong	.	ABHD15	18	.	NM_198147	exon2	c.G1023C	p.P341P	CCGGAGCGGGTCG	.	PASS	Atlas-SNP
CHRND	1144	hgsc.bcm.edu	37	2	233390937	233390937	+	Silent	SNP	A	A	G	rs2245601	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	107	226	1	0.465217	0.00442478	A|0.542;G|0.458	0.458	strong	CHRND,NS,carcinoma,0,1	CHRND	67	1	NM_000751	exon1	c.A12G	p.P4P	GGGGCCAGTGCTG	.	PASS	Atlas-SNP
GNPTAB	79158	hgsc.bcm.edu	37	12	102158763	102158763	+	Silent	SNP	T	T	C	rs10778148	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	278	278	244	0	1	0	T|0.398;C|0.602	0.602	strong	GNPTAB,NS,carcinoma,0,1	GNPTAB	120	1	NM_024312	exon13	c.A1932G	p.T644T	CTGGGCTGTAGAA	.	PASS	Atlas-SNP
DPP10	57628	hgsc.bcm.edu	37	2	116510817	116510817	+	Missense_Mutation	SNP	G	G	C	rs2053724	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	81	145	0	0.515924	0	G|0.483;C|0.517	0.517	strong	DPP10_ENST00000410059,NS,carcinoma,0,2	DPP10	415	2	NM_001178034	exon11	c.G1030C	p.A344P	AACCGAGCTCAGA	.	PASS	Atlas-SNP
SOS2	6655	hgsc.bcm.edu	37	14	50585248	50585248	+	Silent	SNP	C	C	T	rs2227276	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	72	190	0	0.433735	0	T|0.202;C|0.798	0.202	strong	.	SOS2	195	.	NM_006939	exon23	c.G3813A	p.P1271P	TCGACGCGGTACC	.	PASS	Atlas-SNP
CDNF	441549	hgsc.bcm.edu	37	10	14862082	14862082	+	Missense_Mutation	SNP	C	C	G	rs61738953	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	98	186	0	0.492462	0	C|0.964;G|0.036	0.036	strong	.	CDNF	19	.	NM_001029954	exon4	c.G461C	p.W154S	TCCCCCCAGCTAT	.	PASS	Atlas-SNP
CEP63	80254	hgsc.bcm.edu	37	3	134278270	134278270	+	Missense_Mutation	SNP	C	C	T	rs1127826	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	36	69	0	0.461538	0	C|0.695;T|0.305	0.305	strong	.	CEP63	56	.	NM_025180	exon15	c.C1952T	p.S651L	TATCTTCGGTATG	.	PASS	Atlas-SNP
CCDC6	8030	hgsc.bcm.edu	37	10	61552692	61552692	+	Missense_Mutation	SNP	G	G	T	rs1053266	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	97	182	1	0.482587	0.00549451	G|0.577;T|0.423	0.423	strong	CCDC6,NS,carcinoma,0,1	CCDC6	44	1	NM_005436	exon9	c.C1408A	p.P470T	AGGAGGGGTGCGC	.	scavenged	Atlas-SNP
AKD1	221264	hgsc.bcm.edu	37	6	109954518	109954518	+	Silent	SNP	T	T	C	rs9374111	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	9	36	0	0.3	0	C|0.211;N|0.000	0.211	strong	AKD1_ENST00000424296,NS,carcinoma,0,2	AKD1	223	2	NM_145025	exon11	c.A942G	p.L314L	ACGAAATAGCTCA	.	PASS	Atlas-SNP
GDPD5	81544	hgsc.bcm.edu	37	11	75160575	75160575	+	Silent	SNP	G	G	A	rs518611	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	364	362	308	0	0.994505	0	G|0.479;A|0.521	0.521	strong	.	GDPD5	49	.	NM_030792	exon8	c.C555T	p.R185R	CTCTGCGCGGGCG	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11833287	11833287	+	Silent	SNP	A	A	G	rs2286303	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	66	134	0	0.492537	0	A|0.755;G|0.245	0.245	strong	.	DNAH9	695	.	NM_001372	exon63	c.A11982G	p.P3994P	AGAGCCAGCACCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513680	195513680	+	Missense_Mutation	SNP	A	A	T	rs7372250	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	389	111	276	0	0.285347	0	A|1.000;|0.000	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.T4771A	p.S1591T	CTGAGGAAGTGTC	.	PASS	Atlas-SNP
LEPROTL1	23484	hgsc.bcm.edu	37	8	29961951	29961951	+	Silent	SNP	C	C	T	rs11557703	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	262	125	264	0	0.477099	0	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	.	PASS	Atlas-SNP
PLXNA3	55558	hgsc.bcm.edu	37	X	153694334	153694334	+	Missense_Mutation	SNP	C	C	G	rs5945430	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	120	205	0	0.991736	0	C|0.625;G|0.375	0.375	strong	.	PLXNA3	156	.	NM_017514	exon14	c.C2589G	p.D863E	GGGTGACAACCTG	.	PASS	Atlas-SNP
PALM2-AKAP2	445815	hgsc.bcm.edu	37	9	112900199	112900199	+	Missense_Mutation	SNP	T	T	C	rs914358	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	114	136	0	1	0	T|0.526;C|0.474	0.474	strong	.	PALM2-AKAP2	117	.	NM_007203	exon8	c.T2375C	p.L792S	CTCCGTTGGTTGA	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32548628	32548628	+	Missense_Mutation	SNP	G	G	A	rs34624872	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	565	113	321	0	0.2	0	G|0.814;A|0.185	0.185	strong	.	HLA-DRB1	41	.	NM_002124	exon4	c.C658T	p.R220W	CAGACCGTGCTCC	.	PASS	Atlas-SNP
ITGAM	3684	hgsc.bcm.edu	37	16	31336719	31336719	+	Silent	SNP	G	G	A	rs1143682	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	49	98	0	0.466667	0	G|0.631;A|0.369	0.369	strong	ITGAM,NS,carcinoma,0,3	ITGAM	137	3	NM_001145808	exon20	c.G2502A	p.T834T	GTCCACGCTCCAG	.	PASS	Atlas-SNP
CCDC91	55297	hgsc.bcm.edu	37	12	28605426	28605426	+	Missense_Mutation	SNP	G	G	A	rs10771427	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	31	66	0	0.352273	0	G|0.275;A|0.725	0.725	strong	.	CCDC91	63	.	NM_018318	exon10	c.G940A	p.V314M	GAAGCAGTGAAGG	.	PASS	Atlas-SNP
UGT2B28	54490	hgsc.bcm.edu	37	4	70146704	70146704	+	Silent	SNP	G	G	A	rs7689398	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	257	553	0	0.984674	0	G|0.593;A|0.407	0.407	strong	.	UGT2B28	101	.	NM_053039	exon1	c.G486A	p.A162A	GGCTGCGCTACTT	.	PASS	Atlas-SNP
KRT1	3848	hgsc.bcm.edu	37	12	53070174	53070174	+	Missense_Mutation	SNP	C	C	A	rs17678945	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	121	251	0	0.508403	0	C|0.981;A|0.019	0.019	strong	.	KRT1	110	.	NM_006121	exon7	c.G1360T	p.A454S	CCTTGGCCTGCTG	.	PASS	Atlas-SNP
ITGA6	3655	hgsc.bcm.edu	37	2	173362720	173362720	+	Silent	SNP	T	T	C	rs139596061	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	107	243	0	0.424603	0	T|0.999;C|0.001	0.001	strong	.	ITGA6	171	.	NM_001079818	exon24	c.T3006C	p.F1002F	TGTGTTTCCCTCA	.	PASS	Atlas-SNP
PLK3	1263	hgsc.bcm.edu	37	1	45270024	45270024	+	Silent	SNP	G	G	C	rs11211036	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	61	134	0	0.586538	0	G|0.828;C|0.172	0.172	strong	.	PLK3	41	.	NM_004073	exon12	c.G1356C	p.P452P	GAACCCGGCCCCC	.	PASS	Atlas-SNP
ZNF735	730291	hgsc.bcm.edu	37	7	63680099	63680099	+	Missense_Mutation	SNP	C	C	A	rs4320434	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	50	98	0	0.462963	0	C|0.813;A|0.187	0.187	strong	.	.	.	.	NM_001159524	exon4	c.C670A	p.H224N	TTTAACCACTCCT	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50584201	50584201	+	Silent	SNP	A	A	C	rs2272838	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	43	62	0	0.614286	0	A|0.774;C|0.226	0.226	strong	MOV10L1,NS,carcinoma,0,1	MOV10L1	238	1	NM_018995	exon19	c.A2589C	p.T863T	CACCACATGCAGC	.	PASS	Atlas-SNP
FAM174A	345757	hgsc.bcm.edu	37	5	99897866	99897866	+	Silent	SNP	G	G	A	rs6874840	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	263	133	222	0	0.505703	0	G|0.774;A|0.226	0.226	strong	.	FAM174A	13	.	NM_198507	exon2	c.G543A	p.T181T	CAACACGTTGTTT	.	PASS	Atlas-SNP
SLC52A3	113278	hgsc.bcm.edu	37	20	745963	745963	+	Silent	SNP	G	G	A	rs3746807	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	54	91	0	0.482143	0	G|0.885;A|0.115	0.115	strong	.	.	.	.	NM_033409	exon2	c.C456T	p.P152P	CAGGGCGGGCAAG	.	PASS	Atlas-SNP
OR13C9	286362	hgsc.bcm.edu	37	9	107380177	107380177	+	Silent	SNP	A	A	G	rs1813819	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	490	233	529	0	0.47551	0	A|0.694;G|0.306	0.306	strong	.	OR13C9	42	.	NM_001001956	exon1	c.T309C	p.L103L	CAAGCCAAGGAAC	.	PASS	Atlas-SNP
ZNF227	7770	hgsc.bcm.edu	37	19	44739303	44739303	+	Silent	SNP	T	T	C	rs2279073	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	66	121	0	0.488889	0	T|0.587;C|0.413	0.413	strong	.	ZNF227	62	.	NM_182490	exon6	c.T720C	p.N240N	CTCCAATCAGAAA	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82453708	82453708	+	Missense_Mutation	SNP	A	A	C	rs2522833	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	55	125	0	0.45082	0	A|0.586;C|0.414	0.414	strong	.	PCLO	1506	.	NM_014510	exon19	c.T14440G	p.S4814A	GGTGAGATGTGCT	.	PASS	Atlas-SNP
GAL3ST4	79690	hgsc.bcm.edu	37	7	99757612	99757612	+	Missense_Mutation	SNP	G	G	A	rs3823646	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	162	151	0	0.993865	0	G|0.497;A|0.503	0.503	strong	.	GAL3ST4	59	.	NM_024637	exon4	c.C1400T	p.A467V	TGCTTGGCATCCA	.	PASS	Atlas-SNP
MSGN1	343930	hgsc.bcm.edu	37	2	17998095	17998095	+	Missense_Mutation	SNP	C	C	T	rs35858730	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	55	137	0	0.486726	0	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	.	PASS	Atlas-SNP
OR10K2	391107	hgsc.bcm.edu	37	1	158390501	158390501	+	Silent	SNP	G	G	A	rs34616883	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	388	386	289	0	0.994845	0	G|0.643;A|0.357	0.357	strong	OR10K2,NS,carcinoma,0,1	OR10K2	69	1	NM_001004476	exon1	c.C156T	p.D52D	GGCCCTGTCCAGG	.	PASS	Atlas-SNP
C1orf68	100129271	hgsc.bcm.edu	37	1	152692472	152692472	+	Missense_Mutation	SNP	A	A	C	rs873775	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	264	223	2	1	0.00896861	A|0.656;C|0.344	0.344	strong	C1orf68,NS,malignant_melanoma,-1,2	C1orf68	19	2	NM_001024679	exon1	c.A475C	p.T159P	TGTGTCACTGACC	.	PASS	Atlas-SNP
DCTN5	84516	hgsc.bcm.edu	37	16	23677006	23677006	+	Silent	SNP	A	A	G	rs35586	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	53	117	0	0.434426	0	A|0.799;G|0.201	0.201	strong	.	DCTN5	21	.	NM_032486	exon5	c.A408G	p.P136P	ACCTCCAGAAACT	.	PASS	Atlas-SNP
KIFC2	90990	hgsc.bcm.edu	37	8	145698758	145698758	+	Silent	SNP	G	G	A	rs201074786	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	10	37	0	0.454545	0	G|0.997;A|0.003	0.003	strong	.	KIFC2	53	.	NM_145754	exon17	c.G2442A	p.R814R	GCAGAGGGCCTGC	.	PASS	Atlas-SNP
LRRC4	64101	hgsc.bcm.edu	37	7	127669584	127669584	+	Silent	SNP	T	T	C	rs73238074	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	45	76	0	0.45	0	T|0.881;C|0.119	0.119	strong	.	LRRC4	72	.	NM_022143	exon2	c.A1110G	p.A370A	AAGTTCTGCCATC	.	PASS	Atlas-SNP
TBC1D4	9882	hgsc.bcm.edu	37	13	75884216	75884216	+	Missense_Mutation	SNP	C	C	T	rs1062087	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	52	103	0	0.429752	0	C|0.263;T|0.737	0.737	strong	.	TBC1D4	142	.	NM_014832	exon14	c.G2455A	p.V819I	GGAATACAACCAG	.	PASS	Atlas-SNP
CCDC87	55231	hgsc.bcm.edu	37	11	66358126	66358126	+	Silent	SNP	C	C	T	rs486584	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	56	129	0	0.455285	0	C|0.597;T|0.402	0.402	strong	.	CCDC87	83	.	NM_018219	exon1	c.G2361A	p.L787L	CTCCTCCAGGAGG	.	PASS	Atlas-SNP
SPATA18	132671	hgsc.bcm.edu	37	4	52938243	52938243	+	Missense_Mutation	SNP	T	T	C	rs3860707	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	122	132	0	1	0	T|0.544;C|0.456	0.456	strong	.	SPATA18	222	.	NM_145263	exon6	c.T679C	p.S227P	GCCATGTCCGATT	.	PASS	Atlas-SNP
ADPGK	83440	hgsc.bcm.edu	37	15	73052845	73052845	+	Silent	SNP	A	A	G	rs8023358	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	38	73	0	0.469136	0	A|0.822;G|0.178	0.178	strong	.	ADPGK	19	.	NM_031284	exon4	c.T546C	p.G182G	CTTTGGACCAACT	.	PASS	Atlas-SNP
SLAMF8	56833	hgsc.bcm.edu	37	1	159799910	159799910	+	Missense_Mutation	SNP	G	G	A	rs34687326	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	34	73	0	0.419753	0	G|0.926;A|0.074	0.074	strong	.	SLAMF8	30	.	NM_020125	exon2	c.G295A	p.G99S	GACAGCGGCAACT	.	PASS	Atlas-SNP
TMEM161A	54929	hgsc.bcm.edu	37	19	19230816	19230816	+	Missense_Mutation	SNP	T	T	C	rs45467802	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	82	191	0	0.455556	0	T|0.911;C|0.089	0.089	strong	.	TMEM161A	37	.	NM_017814	exon12	c.A1363G	p.I455V	ACCAGATGAGGTA	.	PASS	Atlas-SNP
HOXD12	3238	hgsc.bcm.edu	37	2	176964904	176964904	+	Silent	SNP	G	G	A	rs847151	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	35	82	0	0.514706	0	G|0.702;A|0.298	0.298	strong	.	HOXD12	25	.	NM_021193	exon1	c.G375A	p.L125L	TAGCCTGGCTCCT	.	PASS	Atlas-SNP
STRN3	29966	hgsc.bcm.edu	37	14	31425437	31425437	+	Silent	SNP	T	T	C	rs12886419	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	58	94	0	0.574257	0	T|0.773;C|0.227	0.227	strong	.	STRN3	117	.	NM_001083893	exon2	c.A294G	p.A98A	TAGAAATGCAATC	.	PASS	Atlas-SNP
AXL	558	hgsc.bcm.edu	37	19	41754430	41754430	+	Missense_Mutation	SNP	G	G	A	rs35538872	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	81	143	0	0.519231	0	G|0.995;A|0.005	0.005	strong	AXL,colon,carcinoma,-2,4	AXL	126	4	NM_021913	exon13	c.G1549A	p.G517S	AGCCTGGGCATCA	.	PASS	Atlas-SNP
KCNA4	3739	hgsc.bcm.edu	37	11	30033191	30033191	+	Silent	SNP	G	G	A	rs3802914	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	126	122	0	0.992126	0	G|0.833;A|0.167	0.167	strong	.	KCNA4	158	.	NM_002233	exon2	c.C1035T	p.G345G	ATGCCCGCCAGCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	60	123	0	0.495868	0	G|0.707;A|0.293	0.293	strong	.	CA9	48	.	NM_001216	exon1	c.G97A	p.V33M	CTTCTGGTGCCTG	.	PASS	Atlas-SNP
OLFM2	93145	hgsc.bcm.edu	37	19	9968434	9968434	+	Missense_Mutation	SNP	C	C	T	rs2303100	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	104	81	0	1	0	C|0.622;T|0.378	0.378	strong	.	OLFM2	42	.	NM_058164	exon3	c.G317A	p.R106Q	CGGAGCCGCGCAT	.	PASS	Atlas-SNP
PRODH	5625	hgsc.bcm.edu	37	22	18905964	18905964	+	Missense_Mutation	SNP	C	C	T	rs2904552	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	83	132	0	0.512346	0	C|0.930;T|0.070	0.070	strong	.	PRODH	42	.	NM_016335	exon12	c.G1292A	p.R431H	TCACGGCGAGCCA	.	PASS	Atlas-SNP
CNTNAP4	85445	hgsc.bcm.edu	37	16	76587331	76587331	+	Silent	SNP	T	T	C	rs7184958	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	60	153	0	0.372671	0	T|0.714;C|0.286	0.286	strong	.	CNTNAP4	600	.	NM_138994	exon21	c.T3375C	p.T1125T	CGTGACTGAGTCC	.	PASS	Atlas-SNP
C9orf169	375791	hgsc.bcm.edu	37	9	140120396	140120396	+	Missense_Mutation	SNP	C	C	T	rs6606566	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	18	18	32	0	1	0	C|0.160;T|0.840	0.840	strong	.	C9orf169	6	.	NM_199001	exon2	c.C323T	p.A108V	CGCCCGCGGGGCG	.	PASS	Atlas-SNP
RIPK4	54101	hgsc.bcm.edu	37	21	43161022	43161022	+	Silent	SNP	C	C	T	rs7276592	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	51	76	0	1	0	C|0.579;T|0.421	0.421	strong	.	RIPK4	151	.	NM_020639	exon8	c.G2331A	p.T777T	CAGGAGCGTGGCG	.	PASS	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	37	5	169174484	169174484	+	Silent	SNP	A	A	G	rs13155521	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	29	94	0	0.337209	0	A|0.957;G|0.043	0.043	strong	.	DOCK2	389	.	NM_004946	exon23	c.A2352G	p.Q784Q	AAGTCAATACAAA	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47971626	47971626	+	Silent	SNP	G	G	A	rs885338	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	21	42	0	0.456522	0	G|0.878;A|0.122	0.122	strong	.	PKD1L1	328	.	NM_138295	exon5	c.C426T	p.I142I	CCTTGCGATTATA	.	PASS	Atlas-SNP
TMEM17	200728	hgsc.bcm.edu	37	2	62733189	62733189	+	Missense_Mutation	SNP	C	C	T	rs17854454	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	64	96	0	0.460432	0	C|0.865;T|0.135	0.135	strong	.	TMEM17	19	.	NM_198276	exon1	c.G76A	p.G26S	CTGGACCGGTCCG	.	PASS	Atlas-SNP
EPSTI1	94240	hgsc.bcm.edu	37	13	43462607	43462607	+	Missense_Mutation	SNP	G	G	A	rs11557739	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	61	109	0	0.451852	0	G|0.952;A|0.048	0.048	strong	.	EPSTI1	47	.	NM_001002264	exon13	c.C1012T	p.P338S	ATGAAGGCCAGAT	.	PASS	Atlas-SNP
GBP4	115361	hgsc.bcm.edu	37	1	89652072	89652072	+	Missense_Mutation	SNP	C	C	T	rs561037	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	131	432	0	0.984962	0	C|0.633;T|0.367	0.367	strong	GBP4,NS,carcinoma,+2,1	GBP4	89	1	NM_052941	exon10	c.G1651A	p.E551K	TTTCCTCCTCCAA	.	PASS	Atlas-SNP
PPP1R26	9858	hgsc.bcm.edu	37	9	138377433	138377433	+	Silent	SNP	G	G	A	rs3827827	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	58	104	0	0.471545	0	G|0.824;A|0.176	0.176	strong	KIAA0649,NS,carcinoma,0,1	.	.	1	NM_014811	exon4	c.G1077A	p.A359A	CGAGGCGTCCGAC	.	PASS	Atlas-SNP
MYO3B	140469	hgsc.bcm.edu	37	2	171260787	171260787	+	Missense_Mutation	SNP	G	G	A	rs6736609	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	103	118	0	1	0	G|0.197;A|0.803	0.803	strong	.	MYO3B	320	.	NM_001083615	exon20	c.G2308A	p.V770I	GATGCTGTACCCG	.	PASS	Atlas-SNP
TMEM176A	55365	hgsc.bcm.edu	37	7	150500520	150500520	+	Silent	SNP	C	C	T	rs741066	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	58	131	0	0.414286	0	C|0.750;G|0.000;T|0.250	0.250	strong	TMEM176A,NS,carcinoma,0,1	TMEM176A	35	1	NM_018487	exon4	c.C318T	p.Y106Y	CATTTACGAGAAA	.	PASS	Atlas-SNP
RELN	5649	hgsc.bcm.edu	37	7	103180872	103180872	+	Silent	SNP	A	A	G	rs2075043	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	15	38	0	0.5	0	A|0.937;G|0.063	0.063	strong	.	RELN	593	.	NM_173054	exon44	c.T6702C	p.C2234C	TTTACCACATCCC	.	PASS	Atlas-SNP
WNK2	65268	hgsc.bcm.edu	37	9	96021312	96021312	+	Missense_Mutation	SNP	G	G	A	rs10761203	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	227	247	0	0.991266	0	G|0.644;A|0.356	0.356	strong	WNK2_ENST00000297954,NS,carcinoma,0,2	WNK2	277	2	NM_006648	exon11	c.G2482A	p.V828M	CCTCCCGTGCCAC	.	PASS	Atlas-SNP
DAXX	1616	hgsc.bcm.edu	37	6	33287810	33287810	+	Silent	SNP	G	G	A	rs370615019		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	303	170	244	0	0.561056	0	.	.	weak	.	DAXX	111	.	NM_001141970	exon5	c.C1479T	p.D493D	CTCTTCGTCCTCC	.	PASS	Atlas-SNP
CCR6	1235	hgsc.bcm.edu	37	6	167549775	167549775	+	Silent	SNP	T	T	C	rs3093007	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	108	100	1	1	0.01	T|0.835;C|0.165	0.165	strong	.	CCR6	36	.	NM_004367	exon3	c.T57C	p.F19F	TTATTTTGTGTCA	.	PASS	Atlas-SNP
IL12RB1	3594	hgsc.bcm.edu	37	19	18186575	18186575	+	Silent	SNP	G	G	A	rs17852635	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	48	95	0	0.48	0	G|0.748;A|0.252	0.252	strong	.	IL12RB1	92	.	NM_153701	exon7	c.C684T	p.P228P	GCACACGGGGCTG	.	PASS	Atlas-SNP
GRM8	2918	hgsc.bcm.edu	37	7	126542667	126542667	+	Missense_Mutation	SNP	A	A	T	rs78124913	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	92	236	0	0.467005	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
KIAA0947	23379	hgsc.bcm.edu	37	5	5461976	5461976	+	Silent	SNP	T	T	C	rs72646682	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	58	132	0	0.394558	0	T|0.998;C|0.002	0.002	strong	.	KIAA0947	301	.	NM_015325	exon13	c.T2529C	p.N843N	TAACAATCCTGTA	.	PASS	Atlas-SNP
DCAF13	25879	hgsc.bcm.edu	37	8	104432631	104432631	+	Silent	SNP	T	T	C	rs3098238	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	112	216	0	0.565657	0	T|0.945;C|0.055	0.055	strong	.	DCAF13	66	.	NM_015420	exon2	c.T666C	p.N222N	AGTCAATTGCTTG	.	PASS	Atlas-SNP
BTNL2	56244	hgsc.bcm.edu	37	6	32363955	32363955	+	Silent	SNP	T	T	C	rs2076529	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	78	140	0	0.450867	0	T|0.636;C|0.364	0.364	strong	.	BTNL2	50	.	NM_019602	exon5	c.A939G	p.V313V	CACCAGTACAGTC	.	PASS	Atlas-SNP
SLC5A6	8884	hgsc.bcm.edu	37	2	27424636	27424636	+	Missense_Mutation	SNP	G	G	A	rs1395	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	287	287	202	1	1	0.00495049	A|0.565;C|0.001	0.565	strong	.	SLC5A6	63	.	NM_021095	exon14	c.C1442T	p.S481F	ATGCTGGAGCCCA	.	PASS	Atlas-SNP
ZSCAN5B	342933	hgsc.bcm.edu	37	19	56704101	56704101	+	Silent	SNP	G	G	A	rs61747508	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	843	350	772	2	0.415184	0.00259067	G|0.869;A|0.131	0.131	strong	.	ZSCAN5B	160	.	NM_001080456	exon1	c.C321T	p.N107N	CACACCGTTCACC	.	PASS	Atlas-SNP
EVA1A	84141	hgsc.bcm.edu	37	2	75720664	75720664	+	Silent	SNP	G	G	A	rs6741778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	73	74	0	0.986486	0	G|0.745;A|0.255	0.255	strong	.	.	.	.	NM_032181	exon4	c.C157T	p.L53L	TCACCAGAGCAGC	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7680159	7680159	+	Silent	SNP	G	G	A	rs62059684	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	53	95	0	0.576087	0	G|0.764;A|0.236	0.236	strong	.	DNAH2	498	.	NM_020877	exon31	c.G5010A	p.A1670A	GACAGCGAAGGAG	.	PASS	Atlas-SNP
TFCP2L1	29842	hgsc.bcm.edu	37	2	121989489	121989489	+	Silent	SNP	G	G	A	rs2304667	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	177	157	0	0.994382	0	G|0.631;A|0.369	0.369	strong	.	TFCP2L1	54	.	NM_014553	exon13	c.C1254T	p.I418I	GTTGGCGATCTTC	.	PASS	Atlas-SNP
KIAA2026	158358	hgsc.bcm.edu	37	9	5969249	5969249	+	Silent	SNP	A	A	G	rs10739080	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	43	86	0	0.390909	0	A|0.421;G|0.579	0.579	strong	.	KIAA2026	231	.	NM_001017969	exon3	c.T982C	p.L328L	GTTCCAATTCGTA	.	PASS	Atlas-SNP
HAUS6	54801	hgsc.bcm.edu	37	9	19058821	19058821	+	Silent	SNP	A	A	G	rs10511671	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	335	159	411	0	0.474627	0	A|0.910;G|0.090	0.090	strong	.	HAUS6	66	.	NM_017645	exon16	c.T1944C	p.F648F	CTGGCCAAAATCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	115	99	0	1	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
THSD7A	221981	hgsc.bcm.edu	37	7	11521428	11521428	+	Silent	SNP	A	A	G	rs61996277	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	131	267	1	0.474638	0.00374532	A|0.946;G|0.054	0.054	strong	.	THSD7A	219	.	NM_015204	exon7	c.T2004C	p.Y668Y	ACCCGCATAGGCC	.	PASS	Atlas-SNP
OR8H2	390151	hgsc.bcm.edu	37	11	55873334	55873334	+	Silent	SNP	A	A	G	rs11227212	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	118	181	0	0.59596	0	A|0.902;G|0.098	0.098	strong	OR8H2,NS,carcinoma,0,1	OR8H2	117	1	NM_001005200	exon1	c.A816G	p.Q272Q	AGATCAAGTGGCT	.	PASS	Atlas-SNP
DZIP1L	199221	hgsc.bcm.edu	37	3	137787047	137787047	+	Missense_Mutation	SNP	C	C	T	rs374045	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	147	149	0	0.98	0	C|0.306;T|0.694	0.694	strong	DZIP1L,rectum,carcinoma,0,1	DZIP1L	88	1	NM_173543	exon13	c.G1778A	p.R593H	CCGGGGCGTGGAG	.	PASS	Atlas-SNP
LRRC8E	80131	hgsc.bcm.edu	37	19	7964727	7964727	+	Silent	SNP	G	G	A	rs3745382	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	21	54	0	0.4375	0	G|0.802;A|0.198	0.198	strong	.	LRRC8E	67	.	NM_001268284	exon4	c.G1320A	p.E440E	GGTGGAGTCACTC	.	PASS	Atlas-SNP
CNTNAP3	79937	hgsc.bcm.edu	37	9	39103796	39103796	+	Silent	SNP	G	G	A	rs145100345	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	633	256	597	0	0.404423	0	G|0.999;A|0.001	0.001	strong	CNTNAP3,NS,carcinoma,0,1	CNTNAP3	82	1	NM_033655	exon16	c.C2481T	p.S827S	CACCCCGGAGGAA	.	PASS	Atlas-SNP
SUPT6H	6830	hgsc.bcm.edu	37	17	27009749	27009749	+	Silent	SNP	C	C	T	rs12051648	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	180	160	0	0.994475	0	C|0.588;T|0.412	0.412	strong	.	SUPT6H	165	.	NM_003170	exon14	c.C1602T	p.G534G	AGATGGCCTGGCC	.	PASS	Atlas-SNP
SLC35E4	339665	hgsc.bcm.edu	37	22	31042606	31042606	+	Missense_Mutation	SNP	G	G	A	rs148304964	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	15	60	0	0.375	0	G|0.997;A|0.003	0.003	strong	.	SLC35E4	22	.	NM_001001479	exon2	c.G641A	p.R214K	AGGAGAGGCTGGA	.	PASS	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	37	18	13095591	13095591	+	Missense_Mutation	SNP	G	G	A	rs56913743	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	75	139	0	0.443787	0	G|0.861;A|0.139	0.139	strong	.	CEP192	340	.	NM_032142	exon35	c.G6344A	p.R2115Q	TCTCACGGGCGGC	.	PASS	Atlas-SNP
PRMT10	90826	hgsc.bcm.edu	37	4	148589711	148589711	+	Missense_Mutation	SNP	G	G	A	rs146854725	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	51	113	0	0.463636	0	G|0.996;A|0.004	0.004	strong	.	PRMT10	68	.	NM_138364	exon6	c.C932T	p.A311V	ATCTCTGCACATT	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126370709	126370709	+	Silent	SNP	C	C	T	rs139132509	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	37	88	0	0.521127	0	C|0.994;T|0.006	0.006	strong	FAT4_ENST00000394329,NS,carcinoma,0,2	FAT4	1752	2	NM_024582	exon9	c.C8538T	p.S2846S	AGTTTCCGCACAT	.	PASS	Atlas-SNP
PKP2	5318	hgsc.bcm.edu	37	12	33021934	33021934	+	Missense_Mutation	SNP	A	A	G	rs1046116	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	28	77	0	0.424242	0	A|0.807;G|0.193	0.193	strong	.	PKP2	110	.	NM_004572	exon4	c.T1097C	p.L366P	GATGGCAGCATGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	35	72	0	0.5	0	T|0.859;C|0.141	0.141	strong	.	LITAF	16	.	NM_001136473	exon3	c.A274G	p.I92V	TTTGGATAGGGCG	.	PASS	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	37	1	156508792	156508792	+	Silent	SNP	T	T	C	rs79402045	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	114	167	0	0.545455	0	T|0.992;C|0.008	0.008	strong	.	IQGAP3	146	.	NM_178229	exon26	c.A3090G	p.T1030T	GTTGCCTGTCACC	.	PASS	Atlas-SNP
BSG	682	hgsc.bcm.edu	37	19	580388	580388	+	Silent	SNP	C	C	G	rs2229664	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	24	42	0	0.489796	0	C|0.869;G|0.131	0.131	strong	.	BSG	48	.	NM_001728	exon4	c.C582G	p.S194S	GGACTCCGACGAC	.	PASS	Atlas-SNP
NKAIN4	128414	hgsc.bcm.edu	37	20	61878950	61878950	+	Missense_Mutation	SNP	A	A	C	rs872808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	82	242	0	0.43617	0	A|0.529;C|0.471	0.471	strong	NKAIN4,NS,carcinoma,0,1	NKAIN4	23	1	NM_152864	exon4	c.T451G	p.C151G	GCAGGCAACTGTG	.	PASS	Atlas-SNP
ZDHHC11	79844	hgsc.bcm.edu	37	5	837556	837556	+	Missense_Mutation	SNP	T	T	G	rs28449575	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	505	60	370	4	0.118812	0.0108108	T|0.617;G|0.383	0.383	strong	ZDHHC11_ENST00000424784,NS,neuroblastoma,0,2	ZDHHC11	97	2	NM_024786	exon6	c.A824C	p.N275T	TTGCGGTTATTAA	.	scavenged	Atlas-SNP
CACNA1C	775	hgsc.bcm.edu	37	12	2694638	2694638	+	Silent	SNP	C	C	T	rs215976	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	30	94	0	0.365854	0	C|0.836;T|0.164	0.164	strong	Q6YL47_HUMAN,NS,carcinoma,0,5	CACNA1C	1023	5	NM_001129831	exon17	c.C2436T	p.D812D	GGCTGACGGAGAG	.	PASS	Atlas-SNP
DHX57	90957	hgsc.bcm.edu	37	2	39050141	39050141	+	Silent	SNP	A	A	C	rs3770681	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	72	103	0	1	0	A|0.422;C|0.578	0.578	strong	.	DHX57	127	.	NM_198963	exon17	c.T3285G	p.S1095S	AAACGGAGACTTA	.	PASS	Atlas-SNP
GPBP1L1	60313	hgsc.bcm.edu	37	1	46095272	46095272	+	Silent	SNP	T	T	C	rs1135812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	46	100	0	0.393162	0	T|0.709;C|0.291;A|0.000	0.291	strong	.	GPBP1L1	43	.	NM_021639	exon12	c.A1248G	p.K416K	GAACTCTTTGAGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	116	165	0	0.983051	0	G|0.585;A|0.415	0.415	strong	.	COL6A2	351	.	NM_058175	exon26	c.G2039A	p.R680H	ACGAACGTATCGA	.	PASS	Atlas-SNP
ZNF33A	7581	hgsc.bcm.edu	37	10	38345465	38345465	+	Missense_Mutation	SNP	G	G	C	rs10508862	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	44	82	0	0.473118	0	G|0.940;C|0.060	0.060	strong	.	ZNF33A	103	.	NM_006954	exon5	c.G2413C	p.D805H	AGCCCTGATGACA	.	PASS	Atlas-SNP
KCNH6	81033	hgsc.bcm.edu	37	17	61611423	61611423	+	Silent	SNP	T	T	C	rs7225568	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	88	193	0	0.446701	0	C|0.529;N|0.000	0.529	strong	KCNH6,NS,malignant_melanoma,+2,1	KCNH6	122	1	NM_030779	exon5	c.T852C	p.D284D	CAGCGATCAGGAC	.	PASS	Atlas-SNP
OR13C3	138803	hgsc.bcm.edu	37	9	107299001	107299001	+	Missense_Mutation	SNP	C	C	A	rs41304943	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	60	141	0	0.405405	0	C|0.896;A|0.104	0.104	strong	.	OR13C3	45	.	NM_001001961	exon1	c.G94T	p.G32C	TCTCACCCATGTC	.	PASS	Atlas-SNP
ZNF414	84330	hgsc.bcm.edu	37	19	8578035	8578035	+	Missense_Mutation	SNP	T	T	C	rs8100431	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	46	93	0	0.958333	0	T|0.673;C|0.327	0.327	strong	.	ZNF414	25	.	NM_032370	exon2	c.A194G	p.Q65R	CCCTGCTGCATCC	.	PASS	Atlas-SNP
DLG1	1739	hgsc.bcm.edu	37	3	196771513	196771513	+	Missense_Mutation	SNP	G	G	A	rs34492126	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	75	134	0	0.635593	0	G|0.966;A|0.034	0.034	strong	DLG1_ENST00000419354,NS,adenoma,0,3	DLG1	120	3	NM_004087	exon26	c.C2762T	p.P921L	TTTGCCGGAACCC	.	PASS	Atlas-SNP
ACER3	55331	hgsc.bcm.edu	37	11	76701606	76701606	+	Silent	SNP	G	G	A	rs3740767	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	168	165	0	1	0	G|0.409;A|0.591	0.591	strong	.	ACER3	19	.	NM_018367	exon6	c.G426A	p.P142P	AGAGCCGATATTC	.	PASS	Atlas-SNP
ZNF485	220992	hgsc.bcm.edu	37	10	44112245	44112245	+	Missense_Mutation	SNP	G	G	A	rs12354886	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	51	107	0	0.443478	0	G|0.786;A|0.214	0.214	strong	.	ZNF485	102	.	NM_145312	exon5	c.G754A	p.A252T	GCCTTCGCTCAGA	.	PASS	Atlas-SNP
SERPINB5	5268	hgsc.bcm.edu	37	18	61170721	61170721	+	Silent	SNP	T	T	C	rs1455556	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	135	162	0	0.992647	0	T|0.435;C|0.565	0.565	strong	.	SERPINB5	35	.	NM_002639	exon7	c.T894C	p.S298S	CTTCAGTGAAGAC	.	PASS	Atlas-SNP
COL17A1	1308	hgsc.bcm.edu	37	10	105819956	105819956	+	Silent	SNP	G	G	A	rs805701	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	226	190	0	0.995595	0	G|0.437;A|0.563	0.563	strong	.	COL17A1	149	.	NM_000494	exon14	c.C1062T	p.A354A	CTTCTTGGCAGGT	.	PASS	Atlas-SNP
PLXNA1	5361	hgsc.bcm.edu	37	3	126735453	126735453	+	Silent	SNP	C	C	T	rs9858521	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	82	134	0	0.529032	0	C|0.897;T|0.103	0.103	strong	.	PLXNA1	185	.	NM_032242	exon15	c.C3108T	p.T1036T	GCTCACCAACCCT	.	PASS	Atlas-SNP
RAB11FIP4	84440	hgsc.bcm.edu	37	17	29857460	29857460	+	Silent	SNP	G	G	A	rs61731602	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	51	132	0	0.536842	0	G|0.878;A|0.122	0.122	strong	.	RAB11FIP4	65	.	NM_032932	exon14	c.G1770A	p.A590A	GGCTGCGGAGATA	.	PASS	Atlas-SNP
CTC1	80169	hgsc.bcm.edu	37	17	8135444	8135444	+	Missense_Mutation	SNP	C	C	G	rs62620189	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	36	85	0	0.461538	0	C|0.962;G|0.038	0.038	strong	.	CTC1	75	.	NM_025099	exon13	c.G2162C	p.G721A	TCTGGGCCGGTGG	.	PASS	Atlas-SNP
PRKAA2	5563	hgsc.bcm.edu	37	1	57158051	57158051	+	Silent	SNP	G	G	A	rs17848595	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	53	148	0	0.350993	0	G|0.891;A|0.109	0.109	strong	.	PRKAA2	177	.	NM_006252	exon4	c.G351A	p.R117R	AGCCAGGCGGCTC	.	PASS	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	37	2	15679410	15679410	+	Silent	SNP	G	G	A	rs147692911	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	77	185	0	0.413978	0	G|0.999;A|0.001	0.001	strong	.	NBAS	246	.	NM_015909	exon7	c.C450T	p.A150A	GCTTTCGGCATAG	.	PASS	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	117506	117506	+	Missense_Mutation	SNP	G	G	A	rs75709472		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	10	64	0	0.181818	0	.	.	weak	FOXD4_ENST00000382500,NS,carcinoma,0,2	FOXD4	75	2	NM_207305	exon1	c.C614T	p.P205L	GGGGTCGGTTGGT	.	scavenged	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	17147521	17147521	+	Missense_Mutation	SNP	G	G	T	rs1801224	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	109	192	0	0.511737	0	T|0.469;G|0.343;C|0.092;A|0.097	0.469	strong	.	CUBN	515	.	NM_001081	exon11	c.C1165A	p.P389T	CATTTGGCCCATA	.	PASS	Atlas-SNP
ERCC2	2068	hgsc.bcm.edu	37	19	45855524	45855524	+	Silent	SNP	G	G	A	rs1052555	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	67	113	1	0.503759	0.00884956	G|0.767;N|0.002	.	strong	ERCC2_ENST00000391945,trunk,malignant_melanoma,-2,1	ERCC2	78	1	NM_000400	exon22	c.C2133T	p.D711D	ACCCTCGTCCACG	.	scavenged	Atlas-SNP
FAM211A	388341	hgsc.bcm.edu	37	17	16347325	16347325	+	Missense_Mutation	SNP	T	T	C	rs61745139	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	34	101	0	0.425	0	T|0.918;C|0.082	0.082	strong	FAM211A_ENST00000470794,NS,carcinoma,0,3	FAM211A	21	3	NM_207387	exon3	c.A496G	p.R166G	GCTGTCTACCTGC	.	PASS	Atlas-SNP
MCF2L	23263	hgsc.bcm.edu	37	13	113720476	113720476	+	Silent	SNP	C	C	T	rs2297192	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	65	46	0	1	0	C|0.846;T|0.154	0.154	strong	.	MCF2L	182	.	NM_001112732	exon8	c.C873T	p.T291T	GGCCACCGTGCAG	.	PASS	Atlas-SNP
GPRIN2	9721	hgsc.bcm.edu	37	10	46999922	46999922	+	Missense_Mutation	SNP	G	G	T	rs4926046	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	29	109	0	0.189542	0	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	.	PASS	Atlas-SNP
KIAA0922	23240	hgsc.bcm.edu	37	4	154514965	154514965	+	Missense_Mutation	SNP	T	T	C	rs17370297	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	32	68	0	0.484848	0	T|0.744;C|0.256	0.256	strong	KIAA0922,NS,carcinoma,0,1	KIAA0922	214	1	NM_001131007	exon19	c.T1937C	p.M646T	CTGATATGCAGAT	.	PASS	Atlas-SNP
RPS15	6209	hgsc.bcm.edu	37	19	1440068	1440068	+	Missense_Mutation	SNP	G	G	C	rs61746286	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25	6	54	1	0.24	0.0185185	G|0.442;C|0.558	0.558	strong	RPS15,extremity,malignant_melanoma,0,1	RPS15	11	1	NM_001018	exon3	c.G140C	p.R47P	TGAACCGGGGCCT	.	scavenged	Atlas-SNP
WDR55	54853	hgsc.bcm.edu	37	5	140048707	140048707	+	Missense_Mutation	SNP	A	A	G	rs35983033	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	49	94	0	0.583333	0	A|0.936;G|0.064	0.064	strong	.	WDR55	27	.	NM_017706	exon6	c.A704G	p.Y235C	CCATCTACCTCTT	.	PASS	Atlas-SNP
FAM221A	340277	hgsc.bcm.edu	37	7	23728916	23728916	+	Missense_Mutation	SNP	G	G	A	rs34518648	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	22	43	0	0.511628	0	G|0.927;A|0.073	0.073	strong	.	.	.	.	NM_199136	exon3	c.G268A	p.A90T	TTGGAAGCGATTC	.	PASS	Atlas-SNP
BCS1L	617	hgsc.bcm.edu	37	2	219527866	219527866	+	Silent	SNP	T	T	C	rs35843327	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	101	192	0	0.463303	0	T|0.834;C|0.166	0.166	strong	.	BCS1L	22	.	NM_001257343	exon9	c.T1017C	p.P339P	GGACCCTGCCCTG	.	PASS	Atlas-SNP
BTN3A2	11118	hgsc.bcm.edu	37	6	26370572	26370572	+	Silent	SNP	C	C	T	rs34878490	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	99	129	0	0.5	0	C|0.923;T|0.077	0.077	strong	.	BTN3A2	44	.	NM_001197246	exon3	c.C456T	p.V152V	TCACGTCGAAGTG	.	PASS	Atlas-SNP
WHAMM	123720	hgsc.bcm.edu	37	15	83481859	83481859	+	Missense_Mutation	SNP	T	T	A	rs76374995	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	284	127	258	1	0.447183	0.00387597	T|0.982;A|0.018	0.018	strong	.	WHAMM	63	.	NM_001080435	exon2	c.T614A	p.I205N	AGGTTATTCAAGG	.	PASS	Atlas-SNP
ATP13A1	57130	hgsc.bcm.edu	37	19	19758522	19758522	+	Silent	SNP	T	T	C	rs142259293	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	41	133	0	0.450549	0	T|0.989;C|0.011	0.011	strong	ATP13A1,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,2	ATP13A1	82	2	NM_020410	exon20	c.A2679G	p.R893R	CCGCCGTCGCCGC	.	PASS	Atlas-SNP
OR5H15	403274	hgsc.bcm.edu	37	3	97888337	97888337	+	Missense_Mutation	SNP	C	C	T	rs13082608	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244	120	234	0	0.491803	0	C|0.771;T|0.229	0.229	strong	.	OR5H15	70	.	NM_001005515	exon1	c.C794T	p.P265L	CATCTCCGCAAGC	.	PASS	Atlas-SNP
SIGLEC5	8778	hgsc.bcm.edu	37	19	52132668	52132668	+	Missense_Mutation	SNP	T	T	C	rs34553740	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	922	13	877	0	0.0140998	0	.	.	weak	SIGLEC5,NS,carcinoma,0,1	SIGLEC5	67	1	NM_003830	exon3	c.A643G	p.M215V	GTTTCATCTGACA	.	scavenged	Atlas-SNP
ZNF621	285268	hgsc.bcm.edu	37	3	40574395	40574395	+	Silent	SNP	C	C	T	rs151057224	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	55	216	0	0.339506	0	C|1.000;T|0.000	0.000	strong	.	ZNF621	42	.	NM_001098414	exon5	c.C1134T	p.A378A	TTCAGCCGTAGCT	.	PASS	Atlas-SNP
PFAS	5198	hgsc.bcm.edu	37	17	8161149	8161149	+	Missense_Mutation	SNP	C	C	T	rs4791641	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	69	151	0	0.514925	0	C|0.624;T|0.376	0.376	strong	.	PFAS	91	.	NM_012393	exon10	c.C1100T	p.P367L	AGGATCCAAGCTT	.	PASS	Atlas-SNP
TPCN2	219931	hgsc.bcm.edu	37	11	68840160	68840160	+	Missense_Mutation	SNP	A	A	G	rs3750965	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	136	136	0	0.985507	0	A|0.718;G|0.282	0.282	strong	TPCN2,colon,carcinoma,0,1	TPCN2	63	1	NM_139075	exon12	c.A1127G	p.K376R	CCCACAAACAGGC	.	PASS	Atlas-SNP
KLK3	354	hgsc.bcm.edu	37	19	51359503	51359503	+	Silent	SNP	A	A	G	rs1135766	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	75	139	0	0.528169	0	A|0.599;C|0.019	.	strong	KLK3_ENST00000360617,colon,carcinoma,0,2	KLK3	76	2	NM_001030050	exon2	c.A54G	p.A18A	TGCTGCACCCCTC	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26834858	26834858	+	Missense_Mutation	SNP	G	G	A	rs2230384	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	112	129	0	1	0	G|0.975;A|0.025	0.025	strong	.	ITPR2	270	.	NM_002223	exon13	c.C1358T	p.A453V	GTGGTCGCTAGTA	.	PASS	Atlas-SNP
SDCBP2	27111	hgsc.bcm.edu	37	20	1293046	1293046	+	Missense_Mutation	SNP	G	G	A	rs1048621	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	62	97	0	0.601942	0	G|0.816;A|0.184	0.184	strong	.	SDCBP2	78	.	NM_080489	exon7	c.C667T	p.R223C	CGTTGCGGGCCGC	.	PASS	Atlas-SNP
POR	5447	hgsc.bcm.edu	37	7	75615287	75615287	+	Silent	SNP	G	G	A	rs1057870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	21	78	0	0.403846	0	G|0.826;A|0.174	0.174	strong	.	POR	46	.	NM_000941	exon14	c.G1716A	p.S572S	CCGCTCGGATGAG	.	PASS	Atlas-SNP
DNAJC1	64215	hgsc.bcm.edu	37	10	22048330	22048330	+	Silent	SNP	C	C	T	rs9045	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	86	132	0	0.5	0	C|0.861;T|0.139	0.139	strong	DNAJC1,colon,carcinoma,0,2	DNAJC1	42	2	NM_022365	exon11	c.G1365A	p.A455A	CGGCTTCGCTGTA	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130832762	130832762	+	Silent	SNP	T	T	C	rs2599797		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	477	26	456	0	0.0545073	0	.	.	weak	POTEF,NS,carcinoma,0,1	POTEF	140	1	NM_001099771	exon17	c.A2283G	p.K761K	GCCTCTTTTGCTC	.	scavenged	Atlas-SNP
NLRP13	126204	hgsc.bcm.edu	37	19	56419263	56419263	+	Missense_Mutation	SNP	T	T	C	rs17711239	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	46	130	0	0.511111	0	C|0.112;N|0.000	0.112	strong	.	NLRP13	220	.	NM_176810	exon7	c.A2342G	p.N781S	TTGCTGTTACCCT	.	PASS	Atlas-SNP
MLF1IP	79682	hgsc.bcm.edu	37	4	185650154	185650154	+	Silent	SNP	G	G	A	rs6818447	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	80	195	0	0.454545	0	G|0.823;A|0.177	0.177	strong	.	MLF1IP	33	.	NM_024629	exon3	c.C132T	p.F44F	AAAGTCGAACACG	.	PASS	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160746800	160746800	+	Silent	SNP	T	T	C	rs34592866	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	43	110	0	0.494253	0	T|0.962;C|0.038	0.038	strong	.	LY75	151	.	NM_002349	exon4	c.A726G	p.E242E	ATAAGCTTCTTTC	.	PASS	Atlas-SNP
TFRC	7037	hgsc.bcm.edu	37	3	195800811	195800811	+	Missense_Mutation	SNP	C	C	T	rs3817672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	48	85	0	0.585366	0	C|0.624;T|0.376	0.376	strong	.	TFRC	54	.	NM_001128148	exon4	c.G424A	p.G142S	TGGTGCCGGTGAA	.	PASS	Atlas-SNP
TESK2	10420	hgsc.bcm.edu	37	1	45810865	45810865	+	Missense_Mutation	SNP	G	G	A	rs17853159	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	29	63	0	0.644444	0	G|0.952;A|0.048	0.048	strong	.	TESK2	60	.	NM_007170	exon11	c.C1363T	p.R455C	AGGAACGCCACCG	.	PASS	Atlas-SNP
GET4	51608	hgsc.bcm.edu	37	7	930608	930608	+	Silent	SNP	G	G	A	rs11543223	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	318	147	288	1	0.462264	0.00347222	G|0.921;A|0.079	0.079	strong	.	GET4	17	.	NM_015949	exon5	c.G510A	p.A170A	CTCAGCGGACGGG	.	PASS	Atlas-SNP
GBP3	2635	hgsc.bcm.edu	37	1	89478868	89478868	+	Missense_Mutation	SNP	G	G	A	rs113490655	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	97	182	0	0.598765	0	G|0.857;A|0.143	0.143	strong	GBP3,NS,carcinoma,0,1	GBP3	53	1	NM_018284	exon6	c.C868T	p.R290C	ACTTACGAGGCCC	.	PASS	Atlas-SNP
LCT	3938	hgsc.bcm.edu	37	2	136575199	136575199	+	Silent	SNP	G	G	T	rs6719488	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	107	96	0	1	0	G|0.592;T|0.408	0.408	strong	.	LCT	309	.	NM_002299	exon6	c.C1419A	p.G473G	GGCAACGCCTGGG	.	PASS	Atlas-SNP
TMCO3	55002	hgsc.bcm.edu	37	13	114175038	114175038	+	Missense_Mutation	SNP	G	G	A	rs7319493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	68	142	0	0.475524	0	G|0.835;A|0.165	0.165	strong	.	TMCO3	77	.	NM_017905	exon8	c.G1333A	p.A445T	GCCAGTGCATCTT	.	PASS	Atlas-SNP
DES	1674	hgsc.bcm.edu	37	2	220285666	220285666	+	Silent	SNP	G	G	C	rs12920	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	52	45	0	1	0	G|0.635;C|0.365	0.365	strong	.	DES	53	.	NM_001927	exon5	c.G1014C	p.L338L	CGCCCTGAAGGGC	.	PASS	Atlas-SNP
KRTAP9-4	85280	hgsc.bcm.edu	37	17	39406409	39406409	+	Missense_Mutation	SNP	C	C	A	rs2191379	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	426	421	452	2	0.988263	0.00442478	C|0.336;A|0.664	0.664	strong	.	KRTAP9-4	30	.	NM_033191	exon1	c.C437A	p.S146Y	GTGTGTCCAGCTG	.	PASS	Atlas-SNP
NOX5	79400	hgsc.bcm.edu	37	15	69325581	69325581	+	Silent	SNP	C	C	T	rs311893	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	10	10	9	0	1	0	C|0.166;T|0.834	0.834	strong	.	NOX5	60	.	NM_024505	exon5	c.C819T	p.C273C	GGGCTGCGGCCAG	.	PASS	Atlas-SNP
CALHM1	255022	hgsc.bcm.edu	37	10	105218254	105218254	+	Silent	SNP	C	C	T	rs4918016	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	146	108	0	0.993197	0	C|0.702;T|0.298	0.298	strong	.	CALHM1	33	.	NM_001001412	exon1	c.G255A	p.P85P	GCCCAGCGGCCGC	.	PASS	Atlas-SNP
PCDHB13	56123	hgsc.bcm.edu	37	5	140594466	140594466	+	Silent	SNP	G	G	A	rs17844608	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	291	27	250	0	0.0927835	0	.	.	weak	PCDHB13,rectum,carcinoma,+1,1	PCDHB13	142	1	NM_018933	exon1	c.G771A	p.P257P	CAGTCCGGTAGGC	.	scavenged	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115410234	115410234	+	Missense_Mutation	SNP	T	T	C	rs2185913	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	113	218	0	0.523148	0	T|0.781;C|0.219	0.219	strong	NRAP,NS,carcinoma,0,1	NRAP	208	1	NM_001261463	exon8	c.A746G	p.Y249C	ATCTGATAGGCGG	.	PASS	Atlas-SNP
B4GALNT2	124872	hgsc.bcm.edu	37	17	47246956	47246956	+	Missense_Mutation	SNP	C	C	T	rs61743617	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	29	19	44	0	0.655172	0	C|0.989;T|0.011	0.011	strong	.	B4GALNT2	67	.	NM_153446	exon11	c.C1567T	p.R523W	CAGTCTCGGTCTC	.	PASS	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	37	2	33567990	33567990	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	83	137	0	0.601449	0	.	.	none	.	LTBP1	317	.	NM_206943	exon25	c.T3816C	p.Y1272Y	CTGTTATCAGGGC	.	PASS	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79059041	79059041	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	8	78	0	0.0588235	0	.	.	none	ADAMTS7,NS,carcinoma,0,5	ADAMTS7	142	5	NM_014272	exon19	c.A3212G	p.N1071S	TGGAAATTGATGA	.	scavenged	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19181082	19181082	+	Silent	SNP	A	A	C	rs28470550	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	38	70	0	0.493506	0	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	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152665261	152665261	+	Missense_Mutation	SNP	C	C	A	rs4645434	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	62	116	1	0.512397	0.00862069	C|0.427;A|0.573	0.573	strong	SYNE1_ENST00000423061,colon,carcinoma,-2,12	SYNE1	3227	12	NM_182961	exon74	c.G12180T	p.E4060D	ACTTGGCTCTAAA	.	scavenged	Atlas-SNP
SPG7	6687	hgsc.bcm.edu	37	16	89613123	89613123	+	Missense_Mutation	SNP	A	A	G	rs2292954	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	52	100	0	0.45614	0	G|0.121;N|0.000	0.121	strong	.	SPG7	75	.	NM_003119	exon11	c.A1507G	p.T503A	TCCAGCACCTTTT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	165	138	0	0.988024	0	G|0.755;A|0.245	0.245	strong	.	MTPAP	113	.	NM_018109	exon3	c.C484T	p.R162C	GTACGCGTGACCG	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745863	50745863	+	Silent	SNP	C	C	G	rs12317337	by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	255	81	233	2	0.317647	0.00858369	A|1.000	.	weak	FAM186A_ENST00000327337,NS,carcinoma,0,1	FAM186A	181	1	NM_001145475	exon4	c.G4752C	p.A1584A	TTCCTGCGCCTGC	.	scavenged	Atlas-SNP
GPBP1L1	60313	hgsc.bcm.edu	37	1	46094027	46094027	+	Silent	SNP	A	A	G	rs1250	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	25	65	0	0.416667	0	A|0.704;G|0.296	0.296	strong	GPBP1L1,NS,carcinoma,0,1	GPBP1L1	43	1	NM_021639	exon13	c.T1326C	p.S442S	GAACAGACTGGAA	.	PASS	Atlas-SNP
ELFN1	392617	hgsc.bcm.edu	37	7	1785738	1785738	+	Silent	SNP	G	G	A	rs61236605	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	16	7	0	0.695652	0	G|0.868;A|0.132	0.132	strong	.	ELFN1	22	.	NM_001128636	exon2	c.G1506A	p.A502A	GCCTGCGGCCGGC	.	PASS	Atlas-SNP
WFIKKN2	124857	hgsc.bcm.edu	37	17	48917333	48917333	+	Silent	SNP	C	C	T	rs9675120	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	64	111	0	0.507937	0	C|0.501;T|0.499	0.499	strong	.	WFIKKN2	69	.	NM_175575	exon2	c.C684T	p.S228S	AGTGAGCTTCCTC	.	PASS	Atlas-SNP
T	6862	hgsc.bcm.edu	37	6	166580188	166580188	+	Silent	SNP	G	G	A	rs1056048	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	59	126	0	0.491667	0	G|0.749;A|0.251	0.251	strong	.	T	77	.	NM_003181	exon3	c.C363T	p.S121S	GACGCAGCTGGGC	.	PASS	Atlas-SNP
NUB1	51667	hgsc.bcm.edu	37	7	151064064	151064064	+	Silent	SNP	C	C	T	rs386956	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	113	151	1	0.982609	0.00662252	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
MTHFR	4524	hgsc.bcm.edu	37	1	11856378	11856378	+	Missense_Mutation	SNP	G	G	A	rs1801133	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	46	107	0	0.528736	0	G|0.719;A|0.281	0.281	strong	MTHFR,NS,carcinoma,0,1	MTHFR	65	1	NM_005957	exon5	c.C665T	p.A222V	AAATCGGCTCCCG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9088772	9088772	+	Missense_Mutation	SNP	T	T	C	rs17000950	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	95	169	0	0.521978	0	T|0.797;C|0.203	0.203	strong	.	MUC16	4315	.	NM_024690	exon1	c.A3043G	p.R1015G	GTTCCCTGATAGA	.	PASS	Atlas-SNP
ADCK3	56997	hgsc.bcm.edu	37	1	227149203	227149203	+	Silent	SNP	G	G	A	rs11549708	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	291	141	317	0	0.484536	0	G|0.849;A|0.151	0.151	strong	.	ADCK3	77	.	NM_020247	exon2	c.G117A	p.A39A	CATGGCGGCCAGG	.	PASS	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	37	9	117050998	117050998	+	Missense_Mutation	SNP	G	G	A	rs10982134	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	66	108	1	0.478261	0.00925926	G|0.655;A|0.345	0.345	strong	COL27A1,NS,carcinoma,+1,1	COL27A1	200	1	NM_032888	exon43	c.G4061A	p.R1354Q	GTGATCGAGGAGA	.	scavenged	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179644855	179644855	+	Missense_Mutation	SNP	T	T	C	rs10497520	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	273	272	269	1	0.996337	0.00371747	T|0.445;C|0.555	0.555	strong	.	TTN	18412	.	NM_001267550	exon22	c.A3601G	p.K1201E	CAACTTTAGGTTC	.	PASS	Atlas-SNP
CCDC7	221016	hgsc.bcm.edu	37	10	32856746	32856746	+	Missense_Mutation	SNP	A	A	C	rs12268559	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	34	126	0	0.309091	0	A|0.896;C|0.104	0.104	strong	.	CCDC7	47	.	NM_145023	exon16	c.A1346C	p.K449T	TGGAGAAAGAAAC	.	PASS	Atlas-SNP
LCP1	3936	hgsc.bcm.edu	37	13	46705068	46705068	+	Silent	SNP	C	C	A	rs11558762	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	65	170	0	0.419355	0	T|0.011;G|0.182	.	strong	.	LCP1	69	.	NM_002298	exon15	c.G1632T	p.P544P	AATCTTCGGGTCC	.	PASS	Atlas-SNP
TBCD	6904	hgsc.bcm.edu	37	17	80887244	80887244	+	Silent	SNP	T	T	C	rs1127986	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	38	72	0	0.436782	0	T|0.751;C|0.249	0.249	strong	.	TBCD	94	.	NM_005993	exon32	c.T2859C	p.D953D	GTCCGATGTGGCC	.	PASS	Atlas-SNP
C1orf63	57035	hgsc.bcm.edu	37	1	25570081	25570081	+	Missense_Mutation	SNP	T	T	C	rs1043879	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	208	250	1	1	0.004	T|0.831;C|0.169	0.169	strong	.	C1orf63	17	.	NM_020317	exon4	c.A716G	p.E239G	GGTTTTTCATTGG	.	PASS	Atlas-SNP
NT5C1B-RDH14	100526794	hgsc.bcm.edu	37	2	18736613	18736613	+	Silent	SNP	A	A	G	rs72775091	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	106	202	1	0.538071	0.00495049	A|0.974;G|0.026	0.026	strong	.	.	.	.	NM_001199103	exon9	c.T1797C	p.T599T	AATGGAAGTCTGG	.	PASS	Atlas-SNP
GGTLC2	91227	hgsc.bcm.edu	37	22	22988864	22988864	+	Missense_Mutation	SNP	G	G	C	rs8192912		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	424	17	147	0	0.0400943	0	.	.	weak	GGTLC2,NS,carcinoma,0,1	GGTLC2	20	1	NM_199127	exon1	c.G49C	p.D17H	TCTGACGACACCA	.	scavenged	Atlas-SNP
PLA2G7	7941	hgsc.bcm.edu	37	6	46684222	46684222	+	Missense_Mutation	SNP	C	C	T	rs1805017	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	92	93	1	1	0.0107527	C|0.737;T|0.263	0.263	strong	PLA2G7,NS,carcinoma,0,1	PLA2G7	49	1	NM_005084	exon4	c.G275A	p.R92H	TCAAGGCGATCAT	.	scavenged	Atlas-SNP
DHTKD1	55526	hgsc.bcm.edu	37	10	12131081	12131081	+	Missense_Mutation	SNP	T	T	G	rs3740015	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	73	110	0	0.548872	0	T|0.518;G|0.482	0.482	strong	.	DHTKD1	104	.	NM_018706	exon5	c.T814G	p.Y272D	GACCTGTACTTTG	.	PASS	Atlas-SNP
PLEKHH3	79990	hgsc.bcm.edu	37	17	40822678	40822678	+	Silent	SNP	C	C	T	rs2277618	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	50	76	0	0.537634	0	C|0.843;T|0.157	0.157	strong	.	PLEKHH3	49	.	NM_024927	exon10	c.G1467A	p.G489G	TCTCCACCCGGAG	.	PASS	Atlas-SNP
HBS1L	10767	hgsc.bcm.edu	37	6	135358916	135358916	+	Silent	SNP	G	G	A	rs9373121	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	175	224	0	1	0	G|0.831;A|0.169	0.169	strong	.	HBS1L	75	.	NM_001145207	exon5	c.C679T	p.L227L	GAATTAGGTTAGC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238147	31238147	+	Silent	SNP	C	C	G	rs1050326	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	295	104	282	0	0.352542	0	G|0.330;C|0.670	0.330	strong	.	HLA-C	92	.	NM_002117	exon4	c.G735C	p.G245G	GTCCTCCCCATCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508986	195508986	+	Silent	SNP	G	G	A	rs71291870	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	128	297	0	0.573991	0	AACAG|0.500;GACAT|0.500	.	alt	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C9465T	p.V3155V	GTCGGTGACAGGA	.	PASS	Atlas-SNP
C5orf54	63920	hgsc.bcm.edu	37	5	159820931	159820931	+	Missense_Mutation	SNP	C	C	A	rs10515808	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	126	148	1	0.696133	0.00675676	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
PDZRN4	29951	hgsc.bcm.edu	37	12	41966771	41966771	+	Silent	SNP	G	G	A	rs113916113	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	41	49	0	0.602941	0	G|0.992;A|0.008	0.008	strong	.	PDZRN4	346	.	NM_001164595	exon10	c.G2190A	p.K730K	AGAAAAGTCTGAC	.	PASS	Atlas-SNP
SLC17A4	10050	hgsc.bcm.edu	37	6	25776949	25776949	+	Missense_Mutation	SNP	G	G	A	rs11754288	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	329	137	260	1	0.416413	0.00384615	G|0.711;A|0.289	0.289	strong	.	SLC17A4	79	.	NM_005495	exon9	c.G1114A	p.A372T	TTCACTGCCATTG	.	PASS	Atlas-SNP
AASDH	132949	hgsc.bcm.edu	37	4	57237683	57237683	+	Silent	SNP	G	G	A	rs6554354	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	67	90	0	0.531746	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
NLRC3	197358	hgsc.bcm.edu	37	16	3613126	3613126	+	Silent	SNP	C	C	T	rs12445430	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	12	32	0	0.315789	0	C|0.748;T|0.252	0.252	strong	.	NLRC3	103	.	NM_178844	exon5	c.G1812A	p.L604L	GTAGGCCAGGGCA	.	PASS	Atlas-SNP
TEX40	25858	hgsc.bcm.edu	37	11	64068310	64068310	+	Missense_Mutation	SNP	C	C	T	rs2286614	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	72	99	0	0.525547	0	C|0.899;T|0.101	0.101	strong	.	.	.	.	NM_001039496	exon2	c.C203T	p.P68L	ACAGCCCGGGGCG	.	PASS	Atlas-SNP
APOBEC3G	60489	hgsc.bcm.edu	37	22	39477123	39477123	+	Silent	SNP	T	T	C	rs5757465	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	168	112	0	0.988235	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
DMKN	93099	hgsc.bcm.edu	37	19	35998362	35998362	+	Silent	SNP	T	T	G	rs4254439	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	92	97	0	1	0	G|0.367;N|0.002	0.367	strong	.	DMKN	116	.	NM_001190348	exon9	c.A1126C	p.R376R	TCACCCTATAATT	.	PASS	Atlas-SNP
SERPINH1	871	hgsc.bcm.edu	37	11	75277992	75277992	+	Silent	SNP	C	C	T	rs651581	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	17	35	0	1	0	C|0.626;T|0.374	0.374	strong	.	SERPINH1	33	.	NM_001235	exon2	c.C598T	p.L200L	GCCCTGCTAGTCA	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1418192	1418192	+	Silent	SNP	C	C	G	rs9678281	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	49	149	2	0.355072	0.0134228	C|0.654;G|0.346;T|0.000	0.346	strong	TPO,colon,carcinoma,0,1	TPO	224	1	NM_175719	exon2	c.C12G	p.L4L	AGCGCTCGCTGTG	.	scavenged	Atlas-SNP
ZNF211	10520	hgsc.bcm.edu	37	19	58152361	58152361	+	Silent	SNP	T	T	A	rs3746219	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	77	125	0	0.606299	0	T|0.805;A|0.195	0.195	strong	.	ZNF211	78	.	NM_001265597	exon5	c.T702A	p.T234T	GGACACTGCCTCG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507324	195507324	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	381	49	24	0	0.128609	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C11127G	p.H3709Q	GGTGGTGTGACCT	.	PASS	Atlas-SNP
SLC16A8	23539	hgsc.bcm.edu	37	22	38477275	38477275	+	Missense_Mutation	SNP	G	G	A	rs75640043	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	28	46	0	0.736842	0	G|0.951;A|0.049	0.049	strong	SLC16A8,NS,carcinoma,0,1	SLC16A8	13	1	NM_013356	exon4	c.C770T	p.A257V	GTGACGGCGTACA	.	PASS	Atlas-SNP
FAM131B	9715	hgsc.bcm.edu	37	7	143053723	143053723	+	Missense_Mutation	SNP	C	C	T	rs17854363	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	43	130	0	0.349593	0	C|0.809;T|0.191	0.191	strong	.	FAM131B	104	.	NM_001031690	exon7	c.G1003A	p.A335T	TGAGAGCGGTAGA	.	PASS	Atlas-SNP
OR4C46	119749	hgsc.bcm.edu	37	11	51516000	51516000	+	Missense_Mutation	SNP	C	C	T	rs11246607	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	292	136	281	0	0.465753	0	C|0.541;T|0.459	0.459	strong	.	OR4C46	96	.	NM_001004703	exon1	c.C719T	p.S240F	GTGTCTCCCACAT	.	PASS	Atlas-SNP
GARS	2617	hgsc.bcm.edu	37	7	30634548	30634548	+	Missense_Mutation	SNP	C	C	T	rs62636572	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	9	7	23	0	0.777778	0	C|0.986;T|0.014	0.014	strong	.	GARS	52	.	NM_002047	exon1	c.C11T	p.P4L	CCTCTCCGCGTCC	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187549443	187549443	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	85	167	0	0.442708	0	.	.	none	.	FAT1	500	.	NM_005245	exon9	c.G4675A	p.A1559T	ACGGGGCGTGGTC	.	PASS	Atlas-SNP
PSG5	5673	hgsc.bcm.edu	37	19	43680037	43680037	+	Missense_Mutation	SNP	T	T	A	rs1135901	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	57	102	0	0.513514	0	T|0.792;A|0.208	0.208	strong	PSG5,colon,carcinoma,0,2	PSG5	58	2	NM_002781	exon3	c.A694T	p.T232S	TCAGGGTGACTGG	.	PASS	Atlas-SNP
FAN1	22909	hgsc.bcm.edu	37	15	31197564	31197564	+	Missense_Mutation	SNP	G	G	A	rs4779794	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	32	88	0	0.4	0	G|0.626;A|0.374	0.374	strong	FAN1,NS,carcinoma,+1,1	FAN1	77	1	NM_001146095	exon2	c.G698A	p.G233E	TAAGAGGAAGTAA	.	PASS	Atlas-SNP
OR56A5	390084	hgsc.bcm.edu	37	11	5989293	5989293	+	Silent	SNP	G	G	A	rs7113548	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	47	108	0	0.443396	0	G|0.755;A|0.245	0.245	strong	.	.	.	.	NM_001146033	exon1	c.C432T	p.V144V	CCTAGCGACAAAT	.	PASS	Atlas-SNP
SLC39A13	91252	hgsc.bcm.edu	37	11	47434986	47434986	+	Silent	SNP	G	G	A	rs2293576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	54	148	0	0.5625	0	G|0.756;A|0.244	0.244	strong	SLC39A13,NS,carcinoma,+2,1	SLC39A13	18	1	NM_152264	exon5	c.G573A	p.A191A	CGCCGCGCTCAAT	.	PASS	Atlas-SNP
WDR43	23160	hgsc.bcm.edu	37	2	29135468	29135468	+	Silent	SNP	C	C	G	rs6715296	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	109	251	0	0.44856	0	C|0.293;G|0.707	0.707	strong	.	WDR43	38	.	NM_015131	exon4	c.C498G	p.G166G	GAAAGGCGACAAT	.	PASS	Atlas-SNP
GANC	2595	hgsc.bcm.edu	37	15	42570718	42570718	+	Missense_Mutation	SNP	A	A	G	rs8024732	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	285	153	264	0	0.536842	0	A|0.276;G|0.724	0.724	strong	.	GANC	57	.	NM_198141	exon3	c.A131G	p.Q44R	CCTATCAGGCATT	.	PASS	Atlas-SNP
HIST3H3	8290	hgsc.bcm.edu	37	1	228612810	228612810	+	Missense_Mutation	SNP	G	G	A	rs148579172	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	5	160	0	0.0280899	0	G|1.000;T|0.000	.	alt	HIST3H3,colon,carcinoma,+1,1	HIST3H3	20	1	NM_003493	exon1	c.C217T	p.R73C	TCTCGCGCATCAG	.	scavenged	Atlas-SNP
RELN	5649	hgsc.bcm.edu	37	7	103251161	103251161	+	Missense_Mutation	SNP	G	G	C	rs362691	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	31	54	0	0.5	0	C|0.101;G|0.899;N|0.000	0.101	strong	.	RELN	593	.	NM_173054	exon22	c.C2989G	p.L997V	GAAGAAGCACTAT	.	PASS	Atlas-SNP
NOBOX	135935	hgsc.bcm.edu	37	7	144107279	144107279	+	Silent	SNP	A	A	G	rs1208179	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	83	249	0	0.34728	0	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	.	PASS	Atlas-SNP
TEK	7010	hgsc.bcm.edu	37	9	27213580	27213580	+	Silent	SNP	T	T	C	rs3737188	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	38	57	0	0.558824	0	T|0.835;C|0.165	0.165	strong	.	TEK	250	.	NM_000459	exon18	c.T2976C	p.Y992Y	GGTGTATGTGAAA	.	PASS	Atlas-SNP
SART1	9092	hgsc.bcm.edu	37	11	65735174	65735174	+	Missense_Mutation	SNP	G	G	C	rs660118	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	43	114	0	0.43	0	G|0.591;C|0.409	0.409	strong	.	SART1	41	.	NM_005146	exon12	c.G1454C	p.G485A	CGCCGGGGTCCCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195477791	195477791	+	Silent	SNP	G	G	A	rs2291652	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	51	72	0	1	0	G|0.628;A|0.372	0.372	strong	.	MUC4	1505	.	NM_018406	exon23	c.C15840T	p.I5280I	CCCGGAGATGGGC	.	PASS	Atlas-SNP
SERPINB10	5273	hgsc.bcm.edu	37	18	61584749	61584749	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	2	50	0	0.0363636	0	.	.	none	SERPINB10,colon,carcinoma,+2,1	SERPINB10	53	1	NM_005024	exon2	c.G228A	p.R76R	AAAAAGGAAAATG	.	scavenged	Atlas-SNP
CD163L1	283316	hgsc.bcm.edu	37	12	7585971	7585971	+	Silent	SNP	A	A	G	rs10845159	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	83	157	0	0.453552	0	A|0.625;G|0.375	0.375	strong	.	CD163L1	238	.	NM_174941	exon3	c.T444C	p.Y148Y	CTTACCATAACAG	.	PASS	Atlas-SNP
MARCH1	55016	hgsc.bcm.edu	37	4	164466824	164466824	+	Silent	SNP	C	C	T	rs13130399	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	109	206	1	0.506977	0.00485437	C|0.612;T|0.388	0.388	strong	MARCH1,NS,carcinoma,0,2	MARCH1	83	2	NM_001166373	exon7	c.G495A	p.A165A	GGTGATCGCGATT	.	PASS	Atlas-SNP
MDGA1	266727	hgsc.bcm.edu	37	6	37623626	37623626	+	Silent	SNP	C	C	T	rs13204070	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	96	113	0	0.623377	0	C|0.847;T|0.153	0.153	strong	.	MDGA1	104	.	NM_153487	exon4	c.G429A	p.V143V	GCCTCGCACATCG	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	37	6	26463660	26463660	+	Missense_Mutation	SNP	G	G	A	rs13195509	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	96	138	0	0.45283	0	G|0.939;A|0.061	0.061	strong	.	BTN2A1	118	.	NM_001197234	exon4	c.G619A	p.V207M	ACGGCTGTGATCA	.	PASS	Atlas-SNP
IRAK2	3656	hgsc.bcm.edu	37	3	10264480	10264480	+	Missense_Mutation	SNP	C	C	G	rs3844283	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	65	110	0	0.445205	0	C|0.667;G|0.333	0.333	strong	IRAK2_ENST00000256458,caecum,carcinoma,-1,2	IRAK2	113	2	NM_001570	exon9	c.C1174G	p.L392V	GGGCAGCTGACAA	.	PASS	Atlas-SNP
HLA-E	3133	hgsc.bcm.edu	37	6	30458064	30458064	+	Missense_Mutation	SNP	G	G	A	rs1264457	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	161	137	0	0.993827	0	G|0.454;A|0.546	0.546	strong	.	HLA-E	35	.	NM_005516	exon3	c.G382A	p.G128R	CCCGACGGGCGCT	.	PASS	Atlas-SNP
BSND	7809	hgsc.bcm.edu	37	1	55474262	55474262	+	Silent	SNP	G	G	A	rs33938617	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	19	72	0	0.322034	0	G|0.824;A|0.176	0.176	strong	.	BSND	36	.	NM_057176	exon4	c.G924A	p.P308P	CCTCCCGGACAAG	.	PASS	Atlas-SNP
ZNF574	64763	hgsc.bcm.edu	37	19	42583743	42583743	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	69	149	0	0.433962	0	.	.	none	.	ZNF574	57	.	NM_022752	exon2	c.C985T	p.R329W	CACCTGCGGAGTC	.	PASS	Atlas-SNP
FAM131C	348487	hgsc.bcm.edu	37	1	16389026	16389026	+	Missense_Mutation	SNP	T	T	C	rs75282986	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	279	107	354	0	0.383513	0	.	.	weak	.	FAM131C	21	.	NM_182623	exon3	c.A142G	p.K48E	TCTGTTTGTCCTA	.	PASS	Atlas-SNP
AKAP6	9472	hgsc.bcm.edu	37	14	33293022	33293022	+	Silent	SNP	A	A	G	rs1051694	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	19	35	0	0.44186	0	A|0.861;G|0.139	0.139	strong	.	AKAP6	308	.	NM_004274	exon13	c.A6003G	p.A2001A	TGATGCACTGAAA	.	PASS	Atlas-SNP
SLC22A14	9389	hgsc.bcm.edu	37	3	38357817	38357817	+	Missense_Mutation	SNP	C	C	T	rs2070492	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	39	68	0	0.65	0	C|0.897;T|0.103	0.103	strong	.	SLC22A14	64	.	NM_004803	exon9	c.C1535T	p.A512V	TCAGGGCGACAGG	.	PASS	Atlas-SNP
AEBP1	165	hgsc.bcm.edu	37	7	44153780	44153780	+	Missense_Mutation	SNP	A	A	G	rs13928	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	36	52	0	0.529412	0	A|0.582;G|0.418	0.418	strong	.	AEBP1	102	.	NM_001129	exon21	c.A3397G	p.K1133E	GAGGAGAAAGAGG	.	PASS	Atlas-SNP
MAML1	9794	hgsc.bcm.edu	37	5	179201847	179201847	+	Missense_Mutation	SNP	G	G	A	rs6895902	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	22	75	0	0.278481	0	G|0.733;A|0.267	0.267	strong	MAML1,brain,glioma,0,1	MAML1	118	1	NM_014757	exon5	c.G3020A	p.S1007N	GGATGAGTGATTT	.	PASS	Atlas-SNP
TYW3	127253	hgsc.bcm.edu	37	1	75199023	75199023	+	Missense_Mutation	SNP	A	A	C	rs143670067	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	32	99	0	0.380952	0	A|0.997;C|0.003	0.003	strong	.	TYW3	36	.	NM_001162916	exon1	c.A95C	p.E32A	TGGTAGAGCTTGT	.	PASS	Atlas-SNP
HSP90AA1	3320	hgsc.bcm.edu	37	14	102548703	102548703	+	Silent	SNP	T	T	G	rs34644998	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	75	109	0	0.520833	0	T|0.986;G|0.014	0.014	strong	.	HSP90AA1	65	.	NM_001017963	exon11	c.A2200C	p.R734R	TGATTCTCTCCAT	.	PASS	Atlas-SNP
GRM6	2916	hgsc.bcm.edu	37	5	178415937	178415937	+	Silent	SNP	A	A	G	rs2067011	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	203	179	1	1	0.00558659	A|0.500;G|0.500	0.500	strong	.	GRM6	149	.	NM_000843	exon6	c.T1353C	p.N451N	CTCACCATTGAAG	.	PASS	Atlas-SNP
MPHOSPH10	10199	hgsc.bcm.edu	37	2	71360055	71360055	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	76	161	0	0.490323	0	.	.	none	.	MPHOSPH10	81	.	NM_005791	exon2	c.C117T	p.F39F	AAAGTTCACTTCT	.	PASS	Atlas-SNP
KIAA1683	80726	hgsc.bcm.edu	37	19	18377761	18377761	+	Missense_Mutation	SNP	A	A	G	rs12609001	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	44	100	0	0.44	0	A|0.874;G|0.126	0.126	strong	.	KIAA1683	190	.	NM_001145304	exon3	c.T589C	p.C197R	TGTCACAGGAAGG	.	PASS	Atlas-SNP
WDR6	11180	hgsc.bcm.edu	37	3	49044932	49044932	+	Missense_Mutation	SNP	G	G	T	rs62262472	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	80	169	0	0.493827	0	G|0.997;T|0.003	0.003	strong	.	WDR6	79	.	NM_018031	exon1	c.G158T	p.G53V	TGACGGGTCTGGA	.	PASS	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	37	13	25255705	25255705	+	Silent	SNP	C	C	A	rs41288276	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	25	77	0	0.446429	0	C|0.942;A|0.058	0.058	strong	.	ATP12A	172	.	NM_001185085	exon2	c.C15A	p.T5T	GAAAACCCCAGAA	.	PASS	Atlas-SNP
FDX1L	112812	hgsc.bcm.edu	37	19	10426628	10426628	+	Silent	SNP	T	T	C	rs395782	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	77	105	1	0.987179	0.00952381	T|0.511;C|0.489	0.489	strong	FDX1L,NS,carcinoma,0,2	FDX1L	21	2	NM_001031734	exon1	c.A45G	p.L15L	CTGCAGTAGAACC	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56202982	56202982	+	Silent	SNP	A	A	T	rs3826594	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	227	271	0	1	0	A|0.304;T|0.696	0.696	strong	.	ALPK2	487	.	NM_052947	exon5	c.T4437A	p.A1479A	TTGTTCAGCCTCC	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1053524	1053524	+	Silent	SNP	C	C	G	rs3752241	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	34	45	0	0.382022	0	C|0.829;G|0.171	0.171	strong	.	ABCA7	174	.	NM_019112	exon24	c.C3417G	p.L1139L	CAGCCTCGAGGAG	.	PASS	Atlas-SNP
ESR1	2099	hgsc.bcm.edu	37	6	152129308	152129308	+	Silent	SNP	G	G	C	rs746432	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	26	12	45	0	0.461538	0	G|0.959;C|0.041	0.041	strong	.	ESR1	94	.	NM_000125	exon1	c.G261C	p.A87A	GGCTGCGGCGTTC	.	PASS	Atlas-SNP
OR8S1	341568	hgsc.bcm.edu	37	12	48919659	48919659	+	Missense_Mutation	SNP	T	T	C	rs71439450	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	186	184	0	1	0	CA|0.500;TG|0.500	.	alt	.	OR8S1	47	.	NM_001005203	exon1	c.T245C	p.L82P	AGATGCTGGAGAA	.	PASS	Atlas-SNP
TTLL2	83887	hgsc.bcm.edu	37	6	167754710	167754710	+	Missense_Mutation	SNP	A	A	C	rs41266331	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	62	112	0	0.584906	0	A|0.858;C|0.142	0.142	strong	TTLL2,NS,carcinoma,0,1	TTLL2	82	1	NM_031949	exon3	c.A1322C	p.K441T	CTGCAAAAAGTGA	.	PASS	Atlas-SNP
C1orf68	100129271	hgsc.bcm.edu	37	1	152692588	152692588	+	Silent	SNP	A	A	G	rs944682	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	288	287	229	1	0.996528	0.00436681	A|0.651;G|0.349	0.349	strong	C1orf68,NS,carcinoma,+1,2	C1orf68	19	2	NM_001024679	exon1	c.A591G	p.S197S	AGGATCATCTGGC	.	PASS	Atlas-SNP
ADAMTS19	171019	hgsc.bcm.edu	37	5	129040056	129040056	+	Missense_Mutation	SNP	A	A	T	rs11749126	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	103	210	0	0.47907	0	A|0.890;T|0.110	0.110	strong	.	ADAMTS19	216	.	NM_133638	exon21	c.A3266T	p.Y1089F	AATGCTATGTGTG	.	PASS	Atlas-SNP
DLGAP1	9229	hgsc.bcm.edu	37	18	3581966	3581966	+	Silent	SNP	G	G	A	rs56017170	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	164	177	0	1	0	G|0.822;A|0.178	0.178	strong	.	DLGAP1	201	.	NM_001242761	exon8	c.C1872T	p.T624T	GGTGACGGTGGCA	.	PASS	Atlas-SNP
E4F1	1877	hgsc.bcm.edu	37	16	2285357	2285357	+	Silent	SNP	C	C	T	rs26840	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	22	71	0	0.468085	0	C|0.702;T|0.298	0.298	strong	.	E4F1	53	.	NM_004424	exon14	c.C2139T	p.I713I	CACCATCGCCACC	.	PASS	Atlas-SNP
CPT1C	126129	hgsc.bcm.edu	37	19	50216050	50216050	+	Missense_Mutation	SNP	C	C	A	rs79488403	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	90	252	0	0.412844	0	C|0.996;A|0.004	0.004	strong	.	CPT1C	93	.	NM_001199752	exon18	c.C2077A	p.L693M	ATGCATCTGTTTG	.	PASS	Atlas-SNP
STAT2	6773	hgsc.bcm.edu	37	12	56740394	56740394	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	3	153	0	0.0206897	0	.	.	none	STAT2,NS,carcinoma,0,1	STAT2	70	1	NM_005419	exon21	c.T1876C	p.Y626H	CAGAGTAGATGAG	.	scavenged	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34945721	34945721	+	Silent	SNP	T	T	C	rs3174808	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	93	185	0	0.534483	0	T|0.696;C|0.304	0.304	strong	.	SON	343	.	NM_138927	exon9	c.T6993C	p.N2331N	AGGCAATAAGGAA	.	PASS	Atlas-SNP
BRD2	6046	hgsc.bcm.edu	37	6	32944094	32944094	+	Silent	SNP	G	G	C	rs15912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	61	102	0	0.484127	0	G|0.946;C|0.054	0.054	strong	.	BRD2	70	.	NM_005104	exon6	c.G678C	p.L226L	AGCCCTGTATACT	.	PASS	Atlas-SNP
NAGK	55577	hgsc.bcm.edu	37	2	71304726	71304726	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	3	181	0	0.017341	0	.	.	none	NAGK,colon,carcinoma,0,2	NAGK	34	2	NM_017567	exon9	c.C942T	p.C314C	CCTGTGCGTGGGC	.	scavenged	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	37	2	29296870	29296870	+	Silent	SNP	C	C	T	rs62132765	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	562	263	502	0	0.467972	0	C|0.825;T|0.175	0.175	strong	C2orf71,rectum,carcinoma,-1,1	C2orf71	146	1	NM_001029883	exon1	c.G258A	p.R86R	ATCTTTCCTTTTG	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60907675	60907675	+	Silent	SNP	G	G	A	rs6142734	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	94	75	0	1	0	G|0.242;A|0.758	0.758	strong	LAMA5,NS,carcinoma,0,1	LAMA5	268	1	NM_005560	exon27	c.C3381T	p.A1127A	GTGCACGGCCACG	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4841313	4841313	+	Missense_Mutation	SNP	A	A	G	rs6966329	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	41	147	0	0.386792	0	A|0.744;G|0.256	0.256	strong	.	RADIL	110	.	NM_018059	exon12	c.T2813C	p.L938P	CCGCTGAGTCCGT	.	PASS	Atlas-SNP
C3orf30	152405	hgsc.bcm.edu	37	3	118867047	118867047	+	Missense_Mutation	SNP	C	C	G	rs9289122	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	280	149	238	0	0.532143	0	C|0.521;G|0.479	0.479	strong	.	C3orf30	64	.	NM_152539	exon2	c.C1419G	p.D473E	AATTGACCAAGGA	.	PASS	Atlas-SNP
CCDC74A	90557	hgsc.bcm.edu	37	2	132288315	132288315	+	Silent	SNP	G	G	A	rs11547023	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	514	113	482	0	0.219844	0	G|0.949;A|0.051	0.051	strong	.	CCDC74A	44	.	NM_001258304	exon3	c.G585A	p.A195A	TCTTGCGGGCGGT	.	PASS	Atlas-SNP
DAPL1	92196	hgsc.bcm.edu	37	2	159660870	159660870	+	Silent	SNP	C	C	T	rs17810398	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	51	105	0	0.455357	0	C|0.916;T|0.084	0.084	strong	.	DAPL1	11	.	NM_001017920	exon2	c.C135T	p.F45F	AGGATTCGAGAAA	.	PASS	Atlas-SNP
NXNL1	115861	hgsc.bcm.edu	37	19	17566634	17566634	+	Missense_Mutation	SNP	T	T	A	rs56248314	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	11	11	22	0	1	0	T|0.913;A|0.087	0.087	strong	.	NXNL1	13	.	NM_138454	exon2	c.A461T	p.E154V	GCCGCCTCCTGCC	.	PASS	Atlas-SNP
AMPD1	270	hgsc.bcm.edu	37	1	115231254	115231254	+	Missense_Mutation	SNP	G	G	A	rs61752479	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	94	217	2	0.559524	0.00921659	G|0.913;A|0.087	0.087	strong	AMPD1_ENST00000520113,NS,carcinoma,0,2	AMPD1	223	2	NM_000036	exon3	c.C242T	p.P81L	GAAATCGGACAGA	.	scavenged	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79058090	79058090	+	Missense_Mutation	SNP	A	A	G	rs2929158	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	12	146	2	0.139535	0.0136986	A|0.897;G|0.103	0.103	strong	ADAMTS7,rectum,carcinoma,0,1	ADAMTS7	142	1	NM_014272	exon19	c.T4163C	p.V1388A	TCAGGGACTCTGT	.	scavenged	Atlas-SNP
RECK	8434	hgsc.bcm.edu	37	9	36105264	36105264	+	Silent	SNP	A	A	G	rs11788747	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	85	155	0	0.480226	0	A|0.721;G|0.279	0.279	strong	.	RECK	73	.	NM_021111	exon13	c.A1560G	p.P520P	TCTTCCATACTTT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	275	124	257	0	0.450909	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
ABCG5	64240	hgsc.bcm.edu	37	2	44040401	44040401	+	Missense_Mutation	SNP	G	G	C	rs6720173	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	58	122	0	0.446154	0	G|0.792;C|0.208	0.208	strong	.	ABCG5	72	.	NM_022436	exon13	c.C1810G	p.Q604E	TTCCTTGAGTGAA	.	PASS	Atlas-SNP
SPRED2	200734	hgsc.bcm.edu	37	2	65540905	65540905	+	Silent	SNP	C	C	G	rs8827	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	39	81	0	0.493671	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
PLEKHG4	25894	hgsc.bcm.edu	37	16	67322118	67322118	+	Missense_Mutation	SNP	G	G	C	rs17680862	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	30	57	0	0.461538	0	G|0.977;C|0.023	0.023	strong	.	PLEKHG4	94	.	NM_001129728	exon20	c.G3269C	p.S1090T	ATGACAGCCTCTA	.	PASS	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	37	11	6530278	6530278	+	Silent	SNP	C	C	T	rs10839568	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	257	109	262	0	0.424125	0	C|0.744;T|0.256	0.256	strong	.	DNHD1	198	.	NM_173589	exon4	c.C1089T	p.F363F	TCCATTCTTTAAG	.	PASS	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	37	16	15100301	15100301	+	Missense_Mutation	SNP	C	C	T	rs141901522	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	372	103	381	0	0.276882	0	C|0.998;T|0.002	0.002	strong	.	PDXDC1	59	.	NM_015027	exon6	c.C440T	p.A147V	GACTTGCAAAGAT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092973	1092973	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	8	116	0	0.0661157	0	.	.	none	MUC2_ENST00000441003,NS,carcinoma,0,1	MUC2	614	1	NM_002457	exon30	c.C4792T	p.P1598S	CCAACACCCACCG	.	PASS	Atlas-SNP
NADK	65220	hgsc.bcm.edu	37	1	1684472	1684472	+	Silent	SNP	C	C	T	rs7407	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	63	249	0	0.33871	0	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	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152189016	152189016	+	Missense_Mutation	SNP	G	G	A	rs200517377		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	804	32	205	2	0.039801	0.0097561	.	.	weak	HRNR,NS,carcinoma,0,4	HRNR	403	4	NM_001009931	exon3	c.C5089T	p.R1697C	ACTGACGGGAGCC	.	scavenged	Atlas-SNP
RING1	6015	hgsc.bcm.edu	37	6	33179689	33179689	+	Silent	SNP	C	C	T	rs2854028	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	38	77	0	0.447059	0	C|0.842;T|0.158	0.158	strong	.	RING1	40	.	NM_002931	exon6	c.C1029T	p.D343D	AGGTGACGGTCCT	.	PASS	Atlas-SNP
GPSM3	63940	hgsc.bcm.edu	37	6	32159956	32159956	+	Silent	SNP	T	T	C	rs3134605	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	63	155	0	0.406452	0	T|0.814;C|0.186	0.186	strong	GPSM3,colon,carcinoma,0,1	GPSM3	9	1	NM_022107	exon6	c.A114G	p.P38P	AGGGGATGGAGGA	.	PASS	Atlas-SNP
KLHL38	340359	hgsc.bcm.edu	37	8	124664792	124664792	+	Silent	SNP	C	C	T	rs7387544	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	96	119	0	1	0	C|0.264;T|0.736	0.736	strong	KLHL38,NS,carcinoma,-1,1	KLHL38	81	1	NM_001081675	exon1	c.G375A	p.S125S	CAAGTACGAGGAG	.	PASS	Atlas-SNP
IRX4	50805	hgsc.bcm.edu	37	5	1880865	1880865	+	Silent	SNP	T	T	C	rs4975753	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	39	53	0	0.348214	0	T|0.732;C|0.268	0.268	strong	.	IRX4	45	.	NM_016358	exon3	c.A381G	p.P127P	CAGAGCTGGCTCG	.	PASS	Atlas-SNP
NXPE1	120400	hgsc.bcm.edu	37	11	114401283	114401283	+	Silent	SNP	C	C	T	rs7941923	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	109	203	1	0.521531	0.00492611	C|0.779;T|0.221	0.221	strong	.	NXPE1	8	.	NM_152315	exon3	c.G21A	p.T7T	ACCTGCCGTCAGT	.	PASS	Atlas-SNP
PRG2	5553	hgsc.bcm.edu	37	11	57155001	57155001	+	Missense_Mutation	SNP	G	G	A	rs536455	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	105	115	0	1	0	G|0.123;A|0.877	0.877	strong	.	PRG2	65	.	NM_002728	exon6	c.C616T	p.H206Y	GCCAGTGGCCTCC	.	PASS	Atlas-SNP
APBB2	323	hgsc.bcm.edu	37	4	41015823	41015823	+	Silent	SNP	G	G	T	rs2292234	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	127	229	0	0.522634	0	A|0.342;G|0.575;T|0.083	0.083	strong	.	APBB2	61	.	NM_173075	exon6	c.C612A	p.G204G	CAAATCGCCATTC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	212	173	0	0.981481	0	G|0.652;T|0.008	.	strong	.	CACNA1E	778	.	NM_001205293	exon44	c.G5863A	p.A1955T	GACCCCGCCGATG	.	PASS	Atlas-SNP
DCBLD2	131566	hgsc.bcm.edu	37	3	98541116	98541116	+	Silent	SNP	G	G	A	rs828616	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	79	147	0	0.564286	0	G|0.593;A|0.407	0.407	strong	.	DCBLD2	62	.	NM_080927	exon6	c.C786T	p.I262I	ATAGGGGATACCT	.	PASS	Atlas-SNP
KLHL31	401265	hgsc.bcm.edu	37	6	53519857	53519857	+	Silent	SNP	G	G	A	rs12210809	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	119	179	0	0.519651	0	G|0.516;A|0.484	0.484	strong	.	KLHL31	48	.	NM_001003760	exon2	c.C214T	p.L72L	CACATAGGAAGTT	.	PASS	Atlas-SNP
PRSS58	136541	hgsc.bcm.edu	37	7	141957504	141957504	+	Silent	SNP	A	A	G	rs7786497	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	176	126	1	0.99435	0.00793651	A|0.764;G|0.236	0.236	strong	.	PRSS58	41	.	NM_001001317	exon2	c.T24C	p.A8A	CAAGAGAGCCCAG	.	PASS	Atlas-SNP
RASA2	5922	hgsc.bcm.edu	37	3	141295907	141295907	+	Missense_Mutation	SNP	G	G	A	rs201190266	bycluster;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	98	156	0	0.576471	0	G|0.999;T|0.001	.	alt	RASA2_ENST00000286364,NS,carcinoma,0,2	RASA2	169	2	NM_006506	exon15	c.G1549A	p.V517I	GTAGCCGTAGTAT	.	PASS	Atlas-SNP
WDR43	23160	hgsc.bcm.edu	37	2	29164387	29164387	+	Missense_Mutation	SNP	A	A	G	rs200896154	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	55	95	0	0.539216	0	.	.	weak	.	WDR43	38	.	NM_015131	exon15	c.A1681G	p.T561A	GTCAAAACTTTTC	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9085004	9085004	+	Missense_Mutation	SNP	T	T	C	rs11085805	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	46	110	0	0.442308	0	T|0.812;C|0.188	0.188	strong	MUC16_ENST00000397910,NS,carcinoma,+1,2	MUC16	4315	2	NM_024690	exon1	c.A6811G	p.T2271A	AATGAGTTGTCTT	.	PASS	Atlas-SNP
TOMM40	10452	hgsc.bcm.edu	37	19	45395714	45395714	+	Silent	SNP	T	T	C	rs157581	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	50	102	0	0.490196	0	T|0.698;C|0.302	0.302	strong	.	TOMM40	13	.	NM_001128917	exon2	c.T339C	p.F113F	CCATTTTCAGGTG	.	PASS	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	37	17	29167653	29167653	+	Missense_Mutation	SNP	A	A	C	rs3764421	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	104	124	0	0.981132	0	A|0.885;C|0.115	0.115	strong	ATAD5,NS,carcinoma,0,1	ATAD5	150	1	NM_024857	exon4	c.A2095C	p.N699H	TCAAAAAACATAT	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84771567	84771567	+	Silent	SNP	C	C	T	rs1542477	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	148	170	1	0.980132	0.00588235	C|0.159;T|0.841	0.841	strong	.	DNAH6	194	.	NM_001370	exon5	c.C873T	p.S291S	CCGCTCCAAGAAA	.	PASS	Atlas-SNP
NPAT	4863	hgsc.bcm.edu	37	11	108043988	108043988	+	Missense_Mutation	SNP	C	C	T	rs2070661	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	90	70	0	1	0	T|0.575;G|0.005	0.575	strong	.	NPAT	124	.	NM_002519	exon13	c.G1723A	p.V575I	TGTGAACTTCACT	.	PASS	Atlas-SNP
TIRAP	114609	hgsc.bcm.edu	37	11	126162843	126162843	+	Missense_Mutation	SNP	C	C	T	rs8177374	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	51	80	0	0.586207	0	C|0.900;T|0.100	0.100	strong	.	TIRAP	37	.	NM_148910	exon5	c.C539T	p.S180L	TGCTGTCGGGCCT	.	PASS	Atlas-SNP
ME3	10873	hgsc.bcm.edu	37	11	86161388	86161388	+	Missense_Mutation	SNP	C	C	G	rs1042780	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	118	115	0	0.991597	0	C|0.715;G|0.285	0.285	strong	ME3,NS,carcinoma,0,1	ME3	70	1	NM_006680	exon9	c.G972C	p.K324N	CTTGTTCTTGGTG	.	PASS	Atlas-SNP
ARHGEF3	50650	hgsc.bcm.edu	37	3	56766435	56766435	+	Silent	SNP	C	C	G	rs3732511	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	100	120	0	0.980392	0	C|0.827;G|0.173	0.173	strong	.	ARHGEF3	128	.	NM_001128615	exon12	c.G1155C	p.L385L	TTGGAACAGGAAA	.	PASS	Atlas-SNP
ZNF761	388561	hgsc.bcm.edu	37	19	53959568	53959568	+	Missense_Mutation	SNP	G	G	C	rs76363078		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	48	106	0	0.457143	0	.	.	weak	ZNF761,rectum,carcinoma,0,1	ZNF761	104	1	NM_001008401	exon7	c.G1807C	p.E603Q	ACTGAAGAGAATC	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140187048	140187048	+	Silent	SNP	G	G	C	rs3822349	bycluster;byfrequency;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	33	123	0	0.308411	0	G|0.926;C|0.074	0.074	strong	PCDHA4_ENST00000530339,NS,carcinoma,0,4	PCDHA4	419	4	NM_031500	exon1	c.G276C	p.R92R	CGACCGGGAGGAG	.	scavenged	Atlas-SNP
HLA-DQA2	3118	hgsc.bcm.edu	37	6	32713784	32713784	+	Missense_Mutation	SNP	C	C	A	rs79809169		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	787	95	645	0	0.120712	0	.	.	weak	HLA-DQA2,NS,carcinoma,+1,1	HLA-DQA2	27	1	NM_020056	exon3	c.C548A	p.A183D	CTTCTGCTGATGA	.	PASS	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	37	1	186276307	186276307	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306	18	226	12	0.0588235	0.0530973	.	.	none	PRG4,trunk,malignant_melanoma,0,2	PRG4	259	2	NM_005807	exon7	c.G1456A	p.A486T	CCCACTGCCCCCA	.	scavenged	Atlas-SNP
ZNF280A	129025	hgsc.bcm.edu	37	22	22869123	22869123	+	Missense_Mutation	SNP	T	T	C	rs362003	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	52	131	0	0.433333	0	T|0.455;C|0.545	0.545	strong	.	ZNF280A	67	.	NM_080740	exon2	c.A832G	p.N278D	AAAAGTTGCTAAG	.	PASS	Atlas-SNP
UBR3	130507	hgsc.bcm.edu	37	2	170762566	170762566	+	Silent	SNP	A	A	T	rs10194785	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	46	89	0	0.469388	0	A|0.748;T|0.252	0.252	strong	.	UBR3	182	.	NM_172070	exon10	c.A1671T	p.L557L	AGAACTAAACGAG	.	PASS	Atlas-SNP
PRCC	5546	hgsc.bcm.edu	37	1	156737969	156737969	+	Missense_Mutation	SNP	C	C	T	rs11264542	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	8	50	0	0.4	0	C|0.871;T|0.129	0.129	strong	.	PRCC	39	.	NM_005973	exon1	c.C406T	p.P136S	GGGCTTCCCAAGC	.	PASS	Atlas-SNP
C1orf85	112770	hgsc.bcm.edu	37	1	156264648	156264648	+	Missense_Mutation	SNP	C	C	T	rs1570805	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	67	135	0	0.446667	0	C|0.930;T|0.070	0.070	strong	.	C1orf85	41	.	NM_001256608	exon2	c.G280A	p.V94I	AGTTGACGCTCAG	.	PASS	Atlas-SNP
OR10H2	26538	hgsc.bcm.edu	37	19	15838967	15838967	+	Silent	SNP	G	G	A	rs45442392	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	357	145	300	0	0.406162	0	G|0.611;A|0.389	0.389	strong	OR10H2,NS,carcinoma,+1,1	OR10H2	59	1	NM_013939	exon1	c.G114A	p.T38T	GTTCACGCTGCTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9086984	9086984	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	494	5	462	0	0.0101215	0	.	.	none	MUC16_ENST00000397910,NS,carcinoma,0,2	MUC16	4315	2	NM_024690	exon1	c.A4831G	p.T1611A	TGTCTGTAGATGG	.	scavenged	Atlas-SNP
METTL22	79091	hgsc.bcm.edu	37	16	8722629	8722629	+	Missense_Mutation	SNP	G	G	C	rs2270286	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	75	152	0	0.441176	0	G|0.810;C|0.190	0.190	strong	.	METTL22	23	.	NM_024109	exon3	c.G176C	p.W59S	ACTCTTGGACAGA	.	PASS	Atlas-SNP
TTF1	7270	hgsc.bcm.edu	37	9	135277130	135277130	+	Missense_Mutation	SNP	C	C	A	rs3739915	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	86	172	0	0.455026	0	C|0.927;A|0.073	0.073	strong	.	TTF1	82	.	NM_007344	exon2	c.G1079T	p.G360V	TGTGATCCTTCAG	.	PASS	Atlas-SNP
CES1	1066	hgsc.bcm.edu	37	16	55862720	55862720	+	Silent	SNP	T	T	C	rs74019278	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	29	138	0	0.233871	0	T|0.634;C|0.366	0.366	strong	CES1_ENST00000360526,caecum,carcinoma,0,2	CES1	78	2	NM_001025195	exon2	c.A219G	p.E73E	CCATGGTTCTGCA	.	PASS	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	37	2	15607842	15607842	+	Missense_Mutation	SNP	T	T	C	rs4668909	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	124	205	0	0.574074	0	T|0.539;C|0.461	0.461	strong	.	NBAS	246	.	NM_015909	exon18	c.A1964G	p.K655R	TTTTCCTTTTTAT	.	PASS	Atlas-SNP
UBAP2	55833	hgsc.bcm.edu	37	9	33971740	33971740	+	Silent	SNP	A	A	G	rs3739690	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	44	80	0	0.511628	0	A|0.762;G|0.238	0.238	strong	.	UBAP2	82	.	NM_018449	exon8	c.T588C	p.P196P	GTCTGCAGGATTA	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82785097	82785097	+	Missense_Mutation	SNP	T	T	C	rs61741659	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	128	237	0	0.505929	0	T|0.813;C|0.187	0.187	strong	.	PCLO	1506	.	NM_014510	exon2	c.A860G	p.D287G	ACTATGTCTGCCT	.	PASS	Atlas-SNP
MYH9	4627	hgsc.bcm.edu	37	22	36684358	36684358	+	Silent	SNP	C	C	A	rs2269530	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	49	127	0	0.404959	0	C|0.785;A|0.215	0.215	strong	.	MYH9	225	.	NM_002473	exon34	c.G4872T	p.A1624A	GATGTGCGCCTCC	.	PASS	Atlas-SNP
POLR2B	5431	hgsc.bcm.edu	37	4	57881715	57881715	+	Silent	SNP	G	G	A	rs1713982	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	80	65	0	1	0	G|0.634;A|0.366	0.366	strong	POLR2B,colon,carcinoma,0,1	POLR2B	108	1	NM_000938	exon14	c.G1848A	p.T616T	CTATACGGATGCA	.	PASS	Atlas-SNP
FAM129C	199786	hgsc.bcm.edu	37	19	17662616	17662616	+	Missense_Mutation	SNP	G	G	A	rs76629753	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	25	42	0	0.609756	0	G|0.953;A|0.047	0.047	strong	.	FAM129C	110	.	NM_001098524	exon16	c.G1865A	p.R622Q	CTGAGCGGGAAGG	.	PASS	Atlas-SNP
ABCB1	5243	hgsc.bcm.edu	37	7	87229440	87229440	+	Missense_Mutation	SNP	T	T	C	rs9332385		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	79	129	0	0.544828	0	.	.	weak	ABCB1,NS,adenoma,0,1	ABCB1	263	1	NM_000927	exon3	c.A61G	p.N21D	TTTTATTGTTCAG	.	PASS	Atlas-SNP
ASUN	55726	hgsc.bcm.edu	37	12	27068983	27068983	+	Silent	SNP	A	A	T	rs35037404	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	64	59	0	0.969697	0	A|0.972;T|0.028	0.028	strong	.	.	.	.	NM_018164	exon11	c.T1200A	p.P400P	AATTGAAGGTGGA	.	PASS	Atlas-SNP
GRID2IP	392862	hgsc.bcm.edu	37	7	6547902	6547902	+	Missense_Mutation	SNP	G	G	A	rs112305062	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	135	115	0	0.912162	0	G|0.908;A|0.092	0.092	strong	.	GRID2IP	82	.	NM_001145118	exon13	c.C2258T	p.P753L	CTGAGCGGGGGTG	.	PASS	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	37	X	1540706	1540706	+	Missense_Mutation	SNP	A	A	G	rs35466875	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	751	367	762	1	0.488682	0.00131234	A|0.834;G|0.166	0.166	strong	.	ASMTL	56	.	NM_004192	exon9	c.T1090C	p.Y364H	CCAGGTAGACGTT	.	PASS	Atlas-SNP
ING3	54556	hgsc.bcm.edu	37	7	120610901	120610901	+	Silent	SNP	C	C	T	rs2525725	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	34	69	0	0.404762	0	C|0.812;A|0.001	.	strong	.	ING3	36	.	NM_019071	exon10	c.C1068T	p.D356D	TTACGACCCAAAT	.	PASS	Atlas-SNP
ADCY9	115	hgsc.bcm.edu	37	16	4033436	4033436	+	Missense_Mutation	SNP	T	T	C	rs2230739	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	51	124	0	0.432203	0	T|0.736;C|0.264	0.264	strong	ADCY9,NS,carcinoma,0,1	ADCY9	151	1	NM_001116	exon7	c.A2316G	p.I772M	GTTCTTTATGACC	.	PASS	Atlas-SNP
VAV2	7410	hgsc.bcm.edu	37	9	136633699	136633699	+	Missense_Mutation	SNP	G	G	C	rs61751477	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	20	71	0	0.37037	0	G|0.989;C|0.011	0.011	strong	VAV2_ENST00000371850,NS,carcinoma,-1,2	VAV2	165	2	NM_001134398	exon29	c.C2454G	p.I818M	TGTGCCGATGACG	.	PASS	Atlas-SNP
NHLRC3	387921	hgsc.bcm.edu	37	13	39618302	39618302	+	Missense_Mutation	SNP	T	T	G	rs9603498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	118	205	0	0.481633	0	T|0.989;G|0.011	0.011	strong	.	NHLRC3	35	.	NM_001012754	exon5	c.T662G	p.L221R	TTACACTTGATTC	.	PASS	Atlas-SNP
LRBA	987	hgsc.bcm.edu	37	4	151199080	151199080	+	Missense_Mutation	SNP	G	G	A	rs2290846	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	21	68	0	0.396226	0	G|0.803;A|0.197	0.197	strong	.	LRBA	253	.	NM_006726	exon57	c.C8426T	p.S2809L	AGGTCCGACACCT	.	PASS	Atlas-SNP
RPL3L	6123	hgsc.bcm.edu	37	16	2002960	2002960	+	Missense_Mutation	SNP	C	C	T	rs118144581	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	50	80	0	0.617284	0	C|0.996;T|0.004	0.004	strong	.	RPL3L	42	.	NM_005061	exon3	c.G280A	p.A94T	GGGTGGCCACGTA	.	PASS	Atlas-SNP
AMPD3	272	hgsc.bcm.edu	37	11	10503736	10503736	+	Missense_Mutation	SNP	C	C	T	rs11042836	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	39	58	0	0.565217	0	C|0.954;T|0.046	0.046	strong	.	AMPD3	68	.	NM_000480	exon4	c.C580T	p.R194W	CATCCGCGGGCGG	.	PASS	Atlas-SNP
THOC5	8563	hgsc.bcm.edu	37	22	29913272	29913272	+	Missense_Mutation	SNP	C	C	T	rs737976	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	83	190	0	0.456044	0	C|0.516;T|0.484	0.484	strong	.	THOC5	58	.	NM_001002878	exon17	c.G1573A	p.V525I	GGGCAACTGTCAC	.	PASS	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	37	3	130125116	130125116	+	Missense_Mutation	SNP	G	G	C	rs1497312	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	120	134	0	1	0	G|0.545;C|0.455	0.455	strong	.	COL6A5	205	.	NM_153264	exon17	c.G4430C	p.C1477S	AGGGCTGTCATGG	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149486382	149486382	+	Missense_Mutation	SNP	C	C	G	rs2074704	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	24	100	0	0.338028	0	C|0.891;G|0.109	0.109	strong	.	.	.	.	NM_198455	exon30	c.C4358G	p.P1453R	CGTGCCCCCAGGG	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17084021	17084021	+	Missense_Mutation	SNP	C	C	G	rs56303240	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	786	311	877	1	0.395674	0.00114025	C|0.750;G|0.250	0.250	strong	Q13209_HUMAN,NS,carcinoma,0,1	.	.	1	NM_001271733	exon14	c.G1900C	p.A634P	CACAGGCCCCCAC	.	PASS	Atlas-SNP
LDHAL6B	92483	hgsc.bcm.edu	37	15	59499228	59499228	+	Missense_Mutation	SNP	C	C	T	rs3809529	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	66	127	0	0.468085	0	C|0.613;T|0.387	0.387	strong	.	LDHAL6B	30	.	NM_033195	exon1	c.C89T	p.P30L	TGTGTCCGCGTCA	.	PASS	Atlas-SNP
AKAP9	10142	hgsc.bcm.edu	37	7	91632286	91632286	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	65	151	0	0.485075	0	.	.	none	.	AKAP9	788	.	NM_005751	exon8	c.T3055G	p.L1019V	AGCTCTTTATTAG	.	PASS	Atlas-SNP
SCAP	22937	hgsc.bcm.edu	37	3	47459679	47459679	+	Missense_Mutation	SNP	C	C	T	rs12487736	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	42	99	0	0.575342	0	C|0.531;T|0.469	0.469	strong	.	SCAP	88	.	NM_012235	exon16	c.G2392A	p.V798I	CGCAGACGTGGCC	.	PASS	Atlas-SNP
NOTCH3	4854	hgsc.bcm.edu	37	19	15295134	15295134	+	Silent	SNP	G	G	A	rs1043996	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	73	138	0	0.486667	0	G|0.460;T|0.004	.	strong	NOTCH3_ENST00000263388,colon,carcinoma,-2,2	NOTCH3	340	2	NM_000435	exon16	c.C2538T	p.C846C	CTGATCGCAGGAA	.	PASS	Atlas-SNP
XRCC1	7515	hgsc.bcm.edu	37	19	44057574	44057574	+	Missense_Mutation	SNP	G	G	A	rs1799782	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	79	115	0	0.533784	0	G|0.905;A|0.095	0.095	strong	.	XRCC1	47	.	NM_006297	exon6	c.C580T	p.R194W	TGATCCGGCTGAA	.	PASS	Atlas-SNP
GAPDHS	26330	hgsc.bcm.edu	37	19	36033460	36033460	+	Silent	SNP	C	C	T	rs2239945	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	68	69	0	1	0	C|0.850;T|0.150	0.150	strong	.	GAPDHS	34	.	NM_014364	exon6	c.C609T	p.V203V	GTTCGTCATGGGT	.	PASS	Atlas-SNP
FFAR4	338557	hgsc.bcm.edu	37	10	95326676	95326676	+	Missense_Mutation	SNP	C	C	T	rs61866610	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	46	124	0	0.676471	0	C|0.920;T|0.080	0.080	strong	.	.	.	.	NM_001195755	exon1	c.C199T	p.R67C	GTGGCGCGCCGAC	.	PASS	Atlas-SNP
SYNE3	161176	hgsc.bcm.edu	37	14	95910933	95910933	+	Silent	SNP	T	T	C	rs9919918	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	86	74	0	0.988506	0	C|0.242;N|0.000	0.242	strong	C14orf49,NS,carcinoma,0,1	SYNE3	130	1	NM_152592	exon9	c.A1665G	p.A555A	AAAAGCTGCTCCA	.	PASS	Atlas-SNP
PRDM9	56979	hgsc.bcm.edu	37	5	23527724	23527724	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	10	200	3	0.0404858	0.015	.	.	none	PRDM9,trunk,malignant_melanoma,0,2	PRDM9	344	2	NM_020227	exon11	c.A2527G	p.N843D	TTTCGCAATAAGT	.	scavenged	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2836238	2836238	+	Missense_Mutation	SNP	G	G	A	rs73632978	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	34	148	0	0.377778	0	G|0.916;A|0.084	0.084	strong	.	ARSD	47	.	NM_001669	exon5	c.C470T	p.S157F	CCGCGGGATGCAC	.	PASS	Atlas-SNP
VSX1	30813	hgsc.bcm.edu	37	20	25059442	25059442	+	Missense_Mutation	SNP	C	C	T	rs6138482	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	232	109	243	1	0.469828	0.00411523	C|0.759;T|0.241	0.241	strong	.	VSX1	20	.	NM_199425	exon3	c.G650A	p.R217H	TTGGAGCGGAGAA	.	PASS	Atlas-SNP
USH1C	10083	hgsc.bcm.edu	37	11	17542439	17542439	+	Silent	SNP	T	T	C	rs2240487	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	120	223	0	0.483871	0	C|0.518;T|0.482	0.518	strong	.	USH1C	157	.	NM_005709	exon14	c.A1188G	p.P396P	GGGTACTGGGTGT	.	PASS	Atlas-SNP
FANCB	2187	hgsc.bcm.edu	37	X	14877404	14877404	+	Missense_Mutation	SNP	C	C	T	rs41309679	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	139	275	0	1	0	C|0.950;T|0.050	0.050	strong	.	FANCB	78	.	NM_152633	exon3	c.G1004A	p.G335E	CCACTTCCAATAA	.	PASS	Atlas-SNP
KCNMB3	27094	hgsc.bcm.edu	37	3	178968634	178968634	+	Missense_Mutation	SNP	C	C	T	rs7645550	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	285	167	247	0	0.585965	0	C|0.649;T|0.351	0.351	strong	KCNMB3,NS,carcinoma,0,1	KCNMB3	46	1	NM_014407	exon2	c.G157A	p.A53T	CTCCAGCACTGGA	.	PASS	Atlas-SNP
GPRC5D	55507	hgsc.bcm.edu	37	12	13102605	13102605	+	Silent	SNP	G	G	A	rs4630382	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	129	124	1	0.992308	0.00806452	G|0.739;A|0.261	0.261	strong	.	GPRC5D	23	.	NM_018654	exon1	c.C714T	p.D238D	CGGGTCGTCCCAC	.	PASS	Atlas-SNP
KCNJ15	3772	hgsc.bcm.edu	37	21	39671476	39671476	+	Nonsense_Mutation	SNP	G	G	A	rs2230033	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	67	148	0	0.421384	0	G|0.642;A|0.358	0.358	strong	KCNJ15,colon,carcinoma,+1,1	KCNJ15	43	1	NM_170736	exon3	c.T293A	p.L98X	AACCCGGTGAGCC	.	PASS	Atlas-SNP
RIOK2	55781	hgsc.bcm.edu	37	5	96513471	96513471	+	Missense_Mutation	SNP	G	G	C	rs2544773	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	58	134	0	0.411348	0	G|0.673;C|0.327	0.327	strong	.	RIOK2	82	.	NM_001159749	exon3	c.C287G	p.S96C	CCAACAGACTCAA	.	PASS	Atlas-SNP
CYP4F11	57834	hgsc.bcm.edu	37	19	16025176	16025176	+	Missense_Mutation	SNP	C	C	T	rs1060463	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	86	158	0	0.5	0	C|0.473;T|0.527	0.527	strong	.	CYP4F11	83	.	NM_001128932	exon12	c.G1336A	p.D446N	CTTGGTCGAAACG	.	PASS	Atlas-SNP
HOXB1	3211	hgsc.bcm.edu	37	17	46607817	46607817	+	Silent	SNP	C	C	T	rs7207109	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	70	139	0	0.4375	0	C|0.838;T|0.162	0.162	strong	.	HOXB1	67	.	NM_002144	exon1	c.G450A	p.A150A	AAAGCTCGCGGTC	.	PASS	Atlas-SNP
ASTN2	23245	hgsc.bcm.edu	37	9	119770480	119770480	+	Silent	SNP	C	C	T	rs3761845	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	226	224	252	0	0.99115	0	C|0.527;N|0.000	.	strong	.	ASTN2	307	.	NM_014010	exon6	c.G1329A	p.P443P	CTTGGCCGGGTTT	.	PASS	Atlas-SNP
AMT	275	hgsc.bcm.edu	37	3	49455330	49455330	+	Silent	SNP	C	C	T	rs11715915	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	29	64	0	0.408451	0	C|0.736;T|0.264	0.264	strong	.	AMT	22	.	NM_001164712	exon8	c.G954A	p.R318R	ACGCCTCCGCTGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515003	195515003	+	Missense_Mutation	SNP	T	T	C	rs76196931	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	87	424	8	0.945652	0.0188679	T|0.702;C|0.298	0.298	strong	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.A3448G	p.T1150A	GGGTGGTGTGACC	.	scavenged	Atlas-SNP
HSP90AB1	3326	hgsc.bcm.edu	37	6	44221265	44221265	+	Missense_Mutation	SNP	C	C	A	rs200104342	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	17	122	0	0.0982659	0	C|0.991;A|0.009	0.009	strong	.	HSP90AB1	83	.	NM_007355	exon12	c.C2105A	p.A702D	CCAATGCTGCAGT	.	PASS	Atlas-SNP
SHFM1	7979	hgsc.bcm.edu	37	7	96339061	96339061	+	Silent	SNP	C	C	T	rs4733	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	43	112	0	0.434343	0	C|0.958;T|0.042	0.042	strong	.	SHFM1	12	.	NM_006304	exon1	c.G15A	p.K5K	CGGCTGCTTTTTC	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	37	6	26463574	26463574	+	Missense_Mutation	SNP	G	G	T	rs34505465	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	65	126	0	0.445205	0	.	.	alt	.	BTN2A1	118	.	NM_001197234	exon4	c.G533T	p.W178L	CAGTGTGGAGGGA	.	PASS	Atlas-SNP
GCC2	9648	hgsc.bcm.edu	37	2	109106381	109106381	+	Silent	SNP	A	A	G	rs12104502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	90	194	0	0.478723	0	A|0.618;G|0.382	0.382	strong	.	GCC2	129	.	NM_181453	exon18	c.A4140G	p.Q1380Q	ACTTCAAACATTG	.	PASS	Atlas-SNP
PPP2R3A	5523	hgsc.bcm.edu	37	3	135720540	135720540	+	Missense_Mutation	SNP	A	A	G	rs9814557	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	212	85	169	0	0.400943	0	A|0.801;G|0.199	0.199	strong	.	PPP2R3A	114	.	NM_002718	exon2	c.A200G	p.D67G	ATGCAGATCTGAA	.	PASS	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	37	16	15129940	15129940	+	Silent	SNP	C	C	T	rs3198697	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	33	68	0	0.540984	0	C|0.746;T|0.254	0.254	strong	.	PDXDC1	59	.	NM_015027	exon23	c.C2175T	p.H725H	CAGTCACATTGAA	.	PASS	Atlas-SNP
SKA3	221150	hgsc.bcm.edu	37	13	21750538	21750538	+	Nonsense_Mutation	SNP	G	G	A	rs61950356	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	22	41	0	0.478261	0	G|0.877;A|0.123	0.123	strong	.	SKA3	76	.	NM_145061	exon1	c.C79T	p.R27X	GCGCTCGCTGCAG	.	PASS	Atlas-SNP
COG2	22796	hgsc.bcm.edu	37	1	230810858	230810858	+	Silent	SNP	T	T	C	rs113173809	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	95	183	0	0.516304	0	T|0.997;C|0.003	0.003	strong	.	COG2	61	.	NM_007357	exon9	c.T1014C	p.D338D	TCCCGATGCATTT	.	PASS	Atlas-SNP
ARFGEF1	10565	hgsc.bcm.edu	37	8	68130265	68130265	+	Missense_Mutation	SNP	C	C	A	rs142342517	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	62	112	0	0.484375	0	C|0.995;A|0.005	0.005	strong	.	ARFGEF1	196	.	NM_006421	exon31	c.G4447T	p.A1483S	GCTGAGCAAAAAT	.	PASS	Atlas-SNP
ALCAM	214	hgsc.bcm.edu	37	3	105260520	105260520	+	Missense_Mutation	SNP	C	C	T	rs1044243	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	38	61	0	0.452381	0	C|0.920;T|0.080	0.080	strong	.	ALCAM	71	.	NM_001627	exon8	c.C902T	p.T301M	CACTGACGGATGT	.	PASS	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38538736	38538736	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	90	192	0	0.466321	0	.	.	none	.	TTC3	182	.	NM_001001894	exon33	c.T4220G	p.L1407R	AGATCCTTGAGGG	.	PASS	Atlas-SNP
PNLIPRP1	5407	hgsc.bcm.edu	37	10	118364967	118364967	+	Missense_Mutation	SNP	G	G	C	rs2305204	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	77	154	0	0.531034	0	G|0.919;C|0.081	0.081	strong	.	PNLIPRP1	82	.	NM_006229	exon12	c.G1242C	p.E414D	AATTGAGAAAGTC	.	PASS	Atlas-SNP
COL1A2	1278	hgsc.bcm.edu	37	7	94041937	94041937	+	Silent	SNP	A	A	C	rs412777	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	28	71	0	0.383562	0	A|0.642;C|0.358	0.358	strong	COL1A2,caecum,carcinoma,0,1	COL1A2	240	1	NM_000089	exon25	c.A1446C	p.P482P	TGGCCCAGCTGGA	.	PASS	Atlas-SNP
PCCA	5095	hgsc.bcm.edu	37	13	100888122	100888122	+	Silent	SNP	A	A	G	rs538229	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	69	135	0	0.514925	0	A|0.862;G|0.138	0.138	strong	PCCA,colon,carcinoma,+2,1	PCCA	59	1	NM_001178004	exon8	c.A627G	p.A209A	AATTGCAAGGGAA	.	PASS	Atlas-SNP
SLC25A32	81034	hgsc.bcm.edu	37	8	104417045	104417045	+	Missense_Mutation	SNP	C	C	T	rs17803441	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	46	119	0	0.383333	0	C|0.952;T|0.048	0.048	strong	.	SLC25A32	36	.	NM_030780	exon3	c.G350A	p.R117H	TCTAAACGTTCAG	.	PASS	Atlas-SNP
TMEM8A	58986	hgsc.bcm.edu	37	16	427516	427516	+	Silent	SNP	T	T	C	rs11649031	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	62	123	0	1	0	T|0.429;C|0.571	0.571	strong	TMEM8A,colon,carcinoma,0,2	TMEM8A	49	2	NM_021259	exon3	c.A369G	p.V123V	GGGCTGTACCGCG	.	PASS	Atlas-SNP
HOOK2	29911	hgsc.bcm.edu	37	19	12876964	12876964	+	Missense_Mutation	SNP	G	G	C	rs897804	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	10	3	46	0	0.3	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	.	scavenged	Atlas-SNP
FUS	2521	hgsc.bcm.edu	37	16	31193942	31193942	+	Silent	SNP	C	C	A	rs741810	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	119	170	0	0.589109	0	C|0.783;A|0.217	0.217	strong	FUS,caecum,carcinoma,0,1	FUS	52	1	NM_001170634	exon3	c.C147A	p.G49G	TTCAGGCTATGGC	.	PASS	Atlas-SNP
PRR5	55615	hgsc.bcm.edu	37	22	45132853	45132853	+	Missense_Mutation	SNP	C	C	T	rs187629442	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	9	6	17	0	0.666667	0	C|0.996;T|0.004	0.004	strong	.	PRR5	75	.	NM_001198721	exon10	c.C962T	p.P321L	CCGACCCGCCCGG	.	PASS	Atlas-SNP
LBR	3930	hgsc.bcm.edu	37	1	225600169	225600169	+	Silent	SNP	C	C	T	rs112582692	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	414	202	410	1	0.487923	0.00243902	C|0.965;T|0.035	0.035	strong	.	LBR	54	.	NM_194442	exon8	c.G1071A	p.S357S	GGCAGGCGACAGG	.	PASS	Atlas-SNP
NOX5	79400	hgsc.bcm.edu	37	15	69328226	69328226	+	Missense_Mutation	SNP	C	C	T	rs12907196	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	138	132	0	0.992806	0	C|0.650;T|0.350	0.350	strong	.	NOX5	60	.	NM_024505	exon7	c.C1138T	p.L380F	CTCCTCCTCATGT	.	PASS	Atlas-SNP
ATAD3B	83858	hgsc.bcm.edu	37	1	1431165	1431165	+	Missense_Mutation	SNP	C	C	T	rs9792879	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	20	79	0	0.227273	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
OR1E2	8388	hgsc.bcm.edu	37	17	3336260	3336260	+	Silent	SNP	A	A	G	rs61739591	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	110	95	0	1	0	A|0.674;G|0.326	0.326	strong	.	OR1E2	25	.	NM_003554	exon1	c.T876C	p.P292P	CAGCATAGGGGTC	.	PASS	Atlas-SNP
PARP9	83666	hgsc.bcm.edu	37	3	122274757	122274757	+	Silent	SNP	G	G	C	rs73192127	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	65	108	0	0.565217	0	G|0.793;C|0.207	0.207	strong	PARP9,caecum,carcinoma,+2,1	PARP9	72	1	NM_031458	exon4	c.C366G	p.V122V	TTTCCAGACTGAT	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31605278	31605278	+	Missense_Mutation	SNP	C	C	T	rs1046756	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	62	114	0	0.492063	0	C|0.943;T|0.057	0.057	strong	.	PRRC2A	152	.	NM_004638	exon31	c.C6389T	p.P2130L	CAGGGCCGCCACC	.	PASS	Atlas-SNP
C11orf74	119710	hgsc.bcm.edu	37	11	36680719	36680719	+	Missense_Mutation	SNP	G	G	A	rs61753861	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	20	51	0	0.465116	0	G|0.985;A|0.015	0.015	strong	.	C11orf74	22	.	NM_138787	exon6	c.T649A	p.F217I	GACTTAGAGAAAT	.	PASS	Atlas-SNP
DUOX2	50506	hgsc.bcm.edu	37	15	45392075	45392075	+	Missense_Mutation	SNP	G	G	A	rs269868	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	205	229	0	1	0	G|0.281;T|0.002	.	strong	.	DUOX2	137	.	NM_014080	exon25	c.C3200T	p.S1067L	GGTGGCGAGGCAA	.	PASS	Atlas-SNP
GM2A	2760	hgsc.bcm.edu	37	5	150647012	150647012	+	Silent	SNP	A	A	G	rs1048723	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	46	114	0	0.321678	0	A|0.762;G|0.238;T|0.000	0.238	strong	.	GM2A	24	.	NM_000405	exon4	c.A582G	p.X194X	CATATAACATGGC	.	PASS	Atlas-SNP
DDR1	780	hgsc.bcm.edu	37	6	30862423	30862423	+	Missense_Mutation	SNP	C	C	T	rs1264319	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	33	75	0	0.445946	0	C|0.820;T|0.180	0.180	strong	.	DDR1	213	.	NM_001202522	exon10	c.C1406T	p.P469L	CCACTCCGCTCCC	.	PASS	Atlas-SNP
LARS2	23395	hgsc.bcm.edu	37	3	45557707	45557707	+	Silent	SNP	G	G	A	rs11549809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	63	148	0	0.492188	0	G|0.727;A|0.273	0.273	strong	.	LARS2	48	.	NM_015340	exon17	c.G1983A	p.T661T	CGACACGATTCGG	.	PASS	Atlas-SNP
ARMC3	219681	hgsc.bcm.edu	37	10	23297252	23297252	+	Missense_Mutation	SNP	G	G	A	rs10828395	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	48	69	0	0.470588	0	G|0.805;A|0.194	0.194	strong	.	ARMC3	102	.	NM_173081	exon15	c.G1877A	p.R626Q	ATGGACGAAGTAT	.	PASS	Atlas-SNP
TTI2	80185	hgsc.bcm.edu	37	8	33361280	33361280	+	Silent	SNP	C	C	T	rs17850186	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	23	96	0	0.45098	0	C|0.986;T|0.014	0.014	strong	C8orf41,rectum,carcinoma,0,2	.	.	2	NM_001265581	exon5	c.G1101A	p.P367P	GAAAGCCGGCAGG	.	PASS	Atlas-SNP
JUN	3725	hgsc.bcm.edu	37	1	59247993	59247993	+	Silent	SNP	C	C	T	rs11688	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	51	111	0	0.621951	0	C|0.908;T|0.092	0.092	strong	.	JUN	26	.	NM_002228	exon1	c.G750A	p.Q250Q	CCGCTCCTGGGAC	.	PASS	Atlas-SNP
OR13C3	138803	hgsc.bcm.edu	37	9	107298444	107298444	+	Silent	SNP	C	C	T	rs41305445	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	42	62	0	0.538462	0	C|0.875;T|0.125	0.125	strong	.	OR13C3	45	.	NM_001001961	exon1	c.G651A	p.L217L	ACAGGCCAGCTTG	.	PASS	Atlas-SNP
C16orf46	123775	hgsc.bcm.edu	37	16	81095099	81095099	+	Silent	SNP	C	C	G	rs2287995	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250	124	274	0	0.496	0	C|0.916;G|0.084	0.084	strong	C16orf46_ENST00000378611,right_upper_lobe,carcinoma,-1,2	C16orf46	57	2	NM_001100873	exon3	c.G855C	p.A285A	CTGGGCCGCTGGG	.	PASS	Atlas-SNP
MCF2L2	23101	hgsc.bcm.edu	37	3	183017965	183017965	+	Missense_Mutation	SNP	T	T	A	rs2293203	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	21	60	0	0.381818	0	T|0.913;A|0.087	0.087	strong	.	MCF2L2	164	.	NM_015078	exon11	c.A1133T	p.Q378L	AGCAGCTGGGCCT	.	PASS	Atlas-SNP
PDCD4	27250	hgsc.bcm.edu	37	10	112647433	112647433	+	Missense_Mutation	SNP	G	G	A	rs41292600	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	35	77	0	0.507246	0	G|0.993;A|0.007	0.007	strong	.	PDCD4	39	.	NM_014456	exon6	c.G566A	p.R189K	TGTTAAGAGATTT	.	PASS	Atlas-SNP
OR11H1	81061	hgsc.bcm.edu	37	22	16449784	16449784	+	Missense_Mutation	SNP	C	C	A	rs2259944		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	490	140	439	2	0.285714	0.00455581	.	.	weak	OR11H1,NS,carcinoma,0,2	OR11H1	44	2	NM_001005239	exon1	c.G21T	p.Q7H	AGTGACCTGCAAG	.	scavenged	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	37	20	3686436	3686436	+	Missense_Mutation	SNP	C	C	T	rs6037651	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	50	76	0	0.480769	0	C|0.350;N|0.000	.	strong	SIGLEC1,colon,carcinoma,0,1	SIGLEC1	210	1	NM_023068	exon3	c.G661A	p.V221M	TGGCCACGGAGAG	.	PASS	Atlas-SNP
KIAA1671	85379	hgsc.bcm.edu	37	22	25577688	25577688	+	Silent	SNP	G	G	A	rs763279	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	66	119	0	0.568965	0	G|0.654;A|0.346	0.346	strong	KIAA1671,NS,carcinoma,0,1	KIAA1671	28	1	NM_001145206	exon8	c.G5097A	p.E1699E	GAAGGAGGAGTCG	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388724	1388724	+	Missense_Mutation	SNP	C	C	G	rs76728908	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	19	89	1	0.633333	0.011236	C|0.500;G|0.500	0.500	weak	CRIPAK,NS,other,0,1	CRIPAK	185	1	NM_175918	exon1	c.C425G	p.P142R	CGTGCCCATGCGG	.	scavenged	Atlas-SNP
CUX2	23316	hgsc.bcm.edu	37	12	111760251	111760251	+	Silent	SNP	G	G	C	rs3742006	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	30	83	0	0.384615	0	G|0.649;C|0.351	0.351	strong	.	CUX2	145	.	NM_015267	exon18	c.G2793C	p.V931V	CAGCGTGAGCGAC	.	PASS	Atlas-SNP
ARMC5	79798	hgsc.bcm.edu	37	16	31476458	31476458	+	Missense_Mutation	SNP	C	C	T	rs11150624	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	58	96	0	0.464	0	C|0.636;T|0.364	0.364	strong	ARMC5_ENST00000457010,brain,glioma,0,1	ARMC5	94	1	NM_024742	exon4	c.C2114T	p.A705V	GCCCCGCGCCCAG	.	PASS	Atlas-SNP
FAM172A	83989	hgsc.bcm.edu	37	5	93410379	93410379	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	16	154	0	0.111888	0	.	.	none	.	FAM172A	38	.	NM_032042	exon2	c.T78A	p.D26E	TTTTTCATCTGGA	.	PASS	Atlas-SNP
WDR91	29062	hgsc.bcm.edu	37	7	134871775	134871775	+	Silent	SNP	C	C	T	rs292557	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	55	156	0	0.398551	0	C|0.315;N|0.000	.	strong	.	WDR91	82	.	NM_014149	exon14	c.G2028A	p.S676S	TCCCTCCGAGTCA	.	PASS	Atlas-SNP
LCE2D	353141	hgsc.bcm.edu	37	1	152636843	152636843	+	Missense_Mutation	SNP	A	A	T	rs9793541	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	122	101	0	1	0	A|0.803;T|0.197	0.197	strong	LCE2D,NS,carcinoma,-1,1	LCE2D	26	1	NM_178430	exon2	c.A262T	p.S88C	CACCAGAGCCCCG	.	PASS	Atlas-SNP
GJB3	2707	hgsc.bcm.edu	37	1	35250720	35250720	+	Silent	SNP	C	C	T	rs41310442	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	89	206	0	0.635714	0	C|0.936;T|0.064	0.064	strong	.	GJB3	40	.	NM_001005752	exon2	c.C357T	p.N119N	CGACAACGCAGGC	.	PASS	Atlas-SNP
KIF27	55582	hgsc.bcm.edu	37	9	86518433	86518433	+	Missense_Mutation	SNP	A	A	G	rs144003628	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	48	149	0	0.444444	0	A|1.000;T|0.000	.	alt	.	KIF27	103	.	NM_017576	exon4	c.T1000C	p.Y334H	TGGCATATTTGAG	.	PASS	Atlas-SNP
SVOPL	136306	hgsc.bcm.edu	37	7	138305806	138305806	+	Silent	SNP	T	T	C	rs3734944	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	41	111	0	0.41	0	T|0.741;C|0.259	0.259	strong	.	SVOPL	111	.	NM_001139456	exon13	c.A1338G	p.A446A	AAATGGTGCCACC	.	PASS	Atlas-SNP
PTK2B	2185	hgsc.bcm.edu	37	8	27255146	27255146	+	Silent	SNP	G	G	A	rs1045511	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	54	146	0	0.45	0	G|0.645;A|0.355	0.355	strong	.	PTK2B	304	.	NM_173174	exon7	c.G45A	p.T15T	GGGCACGTTACGC	.	PASS	Atlas-SNP
ADAMTS14	140766	hgsc.bcm.edu	37	10	72520254	72520254	+	Missense_Mutation	SNP	C	C	T	rs61736607	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	31	61	0	0.54386	0	C|0.944;T|0.056	0.056	strong	.	ADAMTS14	148	.	NM_139155	exon22	c.C3326T	p.P1109L	CAGACCCTGGCCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506245	195506245	+	Missense_Mutation	SNP	C	C	A	rs150394536	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	117	280	2	0.818182	0.00714286	C|0.814;A|0.186	0.186	strong	.	MUC4	1505	.	NM_018406	exon2	c.G12206T	p.S4069I	GAAGGGCTGGTGA	.	PASS	Atlas-SNP
NTN5	126147	hgsc.bcm.edu	37	19	49168005	49168005	+	Silent	SNP	G	G	A	rs17851884	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	70	122	0	0.636364	0	G|0.937;A|0.063	0.063	strong	.	NTN5	27	.	NM_145807	exon3	c.C651T	p.H217H	TCGGGCGTGCTGG	.	PASS	Atlas-SNP
SMARCC1	6599	hgsc.bcm.edu	37	3	47712202	47712202	+	Silent	SNP	T	T	C	rs1141601	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	279	143	263	0	0.512545	0	T|0.639;G|0.036	.	strong	.	SMARCC1	85	.	NM_003074	exon19	c.A1845G	p.K615K	AGCACCTTTACTC	.	PASS	Atlas-SNP
SLC30A9	10463	hgsc.bcm.edu	37	4	41992677	41992677	+	Silent	SNP	C	C	G	rs2581434	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	136	154	0	1	0	C|0.328;G|0.672	0.672	strong	.	SLC30A9	58	.	NM_006345	exon1	c.C9G	p.P3P	GTTACCCGGCTTG	.	PASS	Atlas-SNP
NUFIP1	26747	hgsc.bcm.edu	37	13	45563464	45563464	+	Missense_Mutation	SNP	G	G	C	rs1140993	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	83	96	0	0.976471	0	G|0.431;C|0.569	0.569	strong	.	NUFIP1	41	.	NM_012345	exon1	c.C108G	p.S36R	CATCCAGCTGTCC	.	PASS	Atlas-SNP
TNS1	7145	hgsc.bcm.edu	37	2	218683368	218683368	+	Silent	SNP	C	C	T	rs34144104	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	98	147	0	0.518519	0	C|0.774;T|0.226	0.226	strong	TNS1,NS,carcinoma,0,2	TNS1	251	2	NM_022648	exon24	c.G3375A	p.P1125P	GGCAGACGGGCTG	.	PASS	Atlas-SNP
AGPAT4	56895	hgsc.bcm.edu	37	6	161557662	161557662	+	Silent	SNP	G	G	A	rs3734462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	63	108	0	0.552632	0	G|0.858;A|0.142	0.142	strong	AGPAT4,brain,glioma,-1,1	AGPAT4	50	1	NM_020133	exon9	c.C1047T	p.S349S	TCCCACGGAGGCT	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228520973	228520973	+	Missense_Mutation	SNP	C	C	G	rs369909	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	41	71	0	0.476744	0	C|0.669;G|0.331	0.331	strong	.	OBSCN	2142	.	NM_001271223	exon69	c.C18676G	p.L6226V	AGAGACCTCCAGG	.	PASS	Atlas-SNP
APOA5	116519	hgsc.bcm.edu	37	11	116662331	116662331	+	Silent	SNP	G	G	T	rs12287066	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	91	205	0	0.481481	0	G|0.901;T|0.099	0.099	strong	.	APOA5	34	.	NM_001166598	exon3	c.C132A	p.I44I	CTGATGGATCTGC	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81242194	81242194	+	Missense_Mutation	SNP	T	T	C	rs6564838	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	36	41	0	1	0	T|0.231;C|0.769	0.769	strong	.	PKD1L2	361	.	NM_001076780	exon4	c.A662G	p.E221G	TGTAGCTCCTGGC	.	PASS	Atlas-SNP
CARD8	22900	hgsc.bcm.edu	37	19	48715153	48715153	+	Silent	SNP	T	T	C	rs3745718	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	124	260	1	0.490119	0.00384615	T|0.588;C|0.412	0.412	strong	CARD8_ENST00000391898,colon,carcinoma,0,1	CARD8	53	1	NM_001184900	exon11	c.A1428G	p.Q476Q	ATTGTCTTGGAGA	.	PASS	Atlas-SNP
S100Z	170591	hgsc.bcm.edu	37	5	76171252	76171252	+	Missense_Mutation	SNP	A	A	C	rs1320308	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	80	98	0	1	0	C|0.618;N|0.001;A|0.381	0.618	strong	S100Z,NS,carcinoma,+1,1	S100Z	14	1	NM_130772	exon3	c.A68C	p.E23A	GCAAGGAAAGGAA	.	PASS	Atlas-SNP
WDR17	116966	hgsc.bcm.edu	37	4	177100644	177100644	+	Missense_Mutation	SNP	G	G	A	rs11736872	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	241	122	243	0	0.506224	0	G|0.774;A|0.226	0.226	strong	.	WDR17	198	.	NM_170710	exon31	c.G3883A	p.A1295T	AAATCTGCTATCT	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29821089	29821089	+	Silent	SNP	C	C	T	rs17756919	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	19	46	0	0.44186	0	C|0.659;T|0.341	0.341	strong	.	SVIL	226	.	NM_021738	exon9	c.G1851A	p.V617V	CCTCTCCACCCGT	.	PASS	Atlas-SNP
SMCO4	0	hgsc.bcm.edu	37	11	93212245	93212245	+	Silent	SNP	C	C	T	rs3207348	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	48	91	0	0.457143	0	C|0.891;T|0.109	0.109	strong	.	.	.	.	NM_020179	exon3	c.G111A	p.T37T	GGCCAGCGTGGGC	.	PASS	Atlas-SNP
TRPA1	8989	hgsc.bcm.edu	37	8	72981318	72981318	+	Silent	SNP	G	G	A	rs28546865	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	68	111	0	0.492754	0	G|0.819;A|0.181	0.181	strong	.	TRPA1	256	.	NM_007332	exon3	c.C384T	p.N128N	GTTGAAGTTTCGG	.	PASS	Atlas-SNP
SIPA1	6494	hgsc.bcm.edu	37	11	65408937	65408937	+	Missense_Mutation	SNP	C	C	T	rs3741378	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	43	79	0	0.462366	0	C|0.800;T|0.200	0.200	strong	.	SIPA1	45	.	NM_006747	exon2	c.C545T	p.S182F	CAGCATCCCCACC	.	PASS	Atlas-SNP
RBMXL1	494115	hgsc.bcm.edu	37	1	89448646	89448646	+	Silent	SNP	A	A	G	rs138129402	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	9	316	0	0.0304054	0	A|0.995;G|0.005	0.005	strong	CCBL2,NS,haematopoietic_neoplasm,0,1	.	.	1	NM_001162536	exon3	c.T864C	p.Y288Y	GTTACCATAACTC	.	scavenged	Atlas-SNP
GEMIN4	50628	hgsc.bcm.edu	37	17	649505	649505	+	Missense_Mutation	SNP	T	T	A	rs4968104	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	40	77	0	0.493827	0	T|0.816;A|0.184	0.184	strong	GEMIN4_ENST00000319004,NS,carcinoma,0,4	GEMIN4	116	4	NM_015721	exon2	c.A1778T	p.E593V	CCCTGCTCTTCCA	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40368358	40368358	+	Silent	SNP	G	G	A	rs146289015	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	386	90	214	0	0.233161	0	G|0.987;A|0.013	0.013	strong	.	FCGBP	416	.	NM_003890	exon28	c.C12990T	p.A4330A	GCAGGCGGCCACG	.	PASS	Atlas-SNP
OR13C2	392376	hgsc.bcm.edu	37	9	107367612	107367612	+	Silent	SNP	C	C	T	rs55706329	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	639	265	557	0	0.41471	0	C|0.652;T|0.348	0.348	strong	.	OR13C2	46	.	NM_001004481	exon1	c.G297A	p.V99V	CATCTGCACTGCA	.	PASS	Atlas-SNP
WDR5B	54554	hgsc.bcm.edu	37	3	122133830	122133830	+	Silent	SNP	T	T	G	rs3749213	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	72	114	0	0.431138	0	T|0.790;G|0.210	0.210	strong	.	WDR5B	36	.	NM_019069	exon1	c.A546C	p.I182I	TGACACTATCAAG	.	PASS	Atlas-SNP
GEMIN4	50628	hgsc.bcm.edu	37	17	648157	648157	+	Silent	SNP	G	G	A	rs1045481	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	34	76	0	0.43038	0	G|0.829;A|0.172	0.172	strong	.	GEMIN4	116	.	NM_015721	exon2	c.C3126T	p.I1042I	AGGGCCGATGCCC	.	PASS	Atlas-SNP
ITM2C	81618	hgsc.bcm.edu	37	2	231738168	231738168	+	Missense_Mutation	SNP	G	G	A	rs2289235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	174	195	0	0.983051	0	G|0.531;A|0.469	0.469	strong	.	ITM2C	17	.	NM_030926	exon2	c.G157A	p.G53S	AGGGGGGGCTCAG	.	PASS	Atlas-SNP
SORCS2	57537	hgsc.bcm.edu	37	4	7717012	7717012	+	Silent	SNP	G	G	A	rs2285781	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	113	127	0	1	0	G|0.628;A|0.372	0.372	strong	.	SORCS2	98	.	NM_020777	exon17	c.G2226A	p.L742L	TGCCCTGGGCCAG	.	PASS	Atlas-SNP
ZMYM4	9202	hgsc.bcm.edu	37	1	35853073	35853073	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	4	110	0	0.0487805	0	.	.	none	.	ZMYM4	143	.	NM_005095	exon13	c.T2131A	p.C711S	CAGTTCTGTGGCA	.	PASS	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117158772	117158772	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	413	8	400	0	0.0193705	0	.	.	none	IGSF3_ENST00000369483,NS,carcinoma,0,2	IGSF3	294	2	NM_001542	exon3	c.G351A	p.E117E	TTCATACTCCCCG	.	scavenged	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	37	2	238249108	238249108	+	Silent	SNP	T	T	C	rs61729844	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	28	42	0	0.430769	0	A|0.000;C|0.070;T|0.930	0.070	strong	.	COL6A3	608	.	NM_004369	exon38	c.A8451G	p.P2817P	GAAGGATGGCAAC	.	PASS	Atlas-SNP
CDH3	1001	hgsc.bcm.edu	37	16	68725783	68725783	+	Silent	SNP	G	G	A	rs2274239	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	104	63	0	0.990476	0	G|0.389;A|0.611	0.611	strong	.	CDH3	68	.	NM_001793	exon13	c.G1956A	p.K652K	CTGGAAGGGAGGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	229	288	0	0.995652	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
OR2G2	81470	hgsc.bcm.edu	37	1	247751731	247751731	+	Missense_Mutation	SNP	C	C	G	rs12737801	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	370	180	382	0	0.486486	0	C|0.897;G|0.103	0.103	strong	.	OR2G2	88	.	NM_001001915	exon1	c.C70G	p.P24A	GATTATCCTCAGT	.	PASS	Atlas-SNP
SLC52A3	113278	hgsc.bcm.edu	37	20	744382	744382	+	Missense_Mutation	SNP	G	G	A	rs3746803	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	64	110	0	0.537815	0	G|0.903;A|0.097	0.097	strong	C20orf54,colon,carcinoma,+1,1	.	.	1	NM_033409	exon3	c.C833T	p.T278M	TCCACCGTGCCTG	.	PASS	Atlas-SNP
LGR6	59352	hgsc.bcm.edu	37	1	202276494	202276494	+	Silent	SNP	C	C	T	rs896551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	225	189	0	0.986842	0	C|0.532;T|0.468	0.468	strong	.	LGR6	102	.	NM_001017403	exon14	c.C1245T	p.P415P	CCACCCCGAGGCC	.	PASS	Atlas-SNP
OR7A17	26333	hgsc.bcm.edu	37	19	14992042	14992042	+	Silent	SNP	A	A	G	rs76014757		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	66	85	0	1	0	.	.	weak	.	OR7A17	37	.	NM_030901	exon1	c.T126C	p.N42N	GAGCAGATTCCCG	.	PASS	Atlas-SNP
ZNF862	643641	hgsc.bcm.edu	37	7	149543269	149543269	+	Missense_Mutation	SNP	C	C	T	rs62621204	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	73	147	0	0.480263	0	C|0.834;T|0.166	0.166	strong	.	ZNF862	97	.	NM_001099220	exon3	c.C166T	p.R56C	CTGTTCCGCAAGT	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	711429	711429	+	Missense_Mutation	SNP	C	C	T	rs199527716	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	38	82	0	0.542857	0	C|0.998;T|0.002	0.002	strong	.	WDR90	107	.	NM_145294	exon30	c.C3601T	p.L1201F	CAGCATCTCATTT	.	PASS	Atlas-SNP
NOP9	161424	hgsc.bcm.edu	37	14	24769663	24769663	+	Silent	SNP	T	T	G	rs11158632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	53	80	0	0.53	0	T|0.838;G|0.162	0.162	strong	.	.	.	.	NM_174913	exon2	c.T297G	p.A99A	CCTAGCTTTGTCC	.	PASS	Atlas-SNP
KRTAP10-3	386682	hgsc.bcm.edu	37	21	45978587	45978587	+	Silent	SNP	A	A	G	rs67272426	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	100	193	0	0.497512	0	AGACAT|0.500;GGACGC|0.500	.	alt	.	KRTAP10-3	17	.	NM_198696	exon1	c.T12C	p.S4S	CATGGTAGACGTG	.	PASS	Atlas-SNP
PHLDB3	653583	hgsc.bcm.edu	37	19	44006256	44006256	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	4	204	0	0.0199005	0	.	.	none	Q96HZ0_HUMAN,NS,carcinoma,0,2	PHLDB3	30	2	NM_198850	exon3	c.C393T	p.I131I	CACCTCGATCCTC	.	scavenged	Atlas-SNP
RRP1	8568	hgsc.bcm.edu	37	21	45209559	45209559	+	Silent	SNP	C	C	T	rs78489660	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	48	152	0	0.489796	0	C|0.949;T|0.051	0.051	strong	.	RRP1	23	.	NM_003683	exon1	c.C49T	p.L17L	CAGCGCCTGGCGG	.	PASS	Atlas-SNP
SMC1B	27127	hgsc.bcm.edu	37	22	45767421	45767421	+	Missense_Mutation	SNP	C	C	T	rs56174639	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	55	172	0	0.298913	0	C|0.874;T|0.126	0.126	strong	.	SMC1B	215	.	NM_148674	exon14	c.G2243A	p.C748Y	ATAATACATTGAG	.	PASS	Atlas-SNP
ARHGAP42	143872	hgsc.bcm.edu	37	11	100820663	100820663	+	Missense_Mutation	SNP	G	G	A	rs17647207	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	46	91	0	0.45098	0	G|0.949;A|0.051	0.051	strong	.	ARHGAP42	32	.	NM_152432	exon12	c.G1138A	p.A380T	CTGCCTGCCATTA	.	PASS	Atlas-SNP
TMPRSS4	56649	hgsc.bcm.edu	37	11	117965530	117965530	+	Splice_Site	SNP	A	A	G	rs2276122	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	98	157	0	0.518519	0	A|0.721;G|0.278	0.278	strong	.	TMPRSS4	46	.	NM_001083947	exon2	c.4-1A>G	.	CCTTCAATTACAG	.	PASS	Atlas-SNP
BFAR	51283	hgsc.bcm.edu	37	16	14742400	14742400	+	Missense_Mutation	SNP	T	T	G	rs11546303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	204	214	0	1	0	T|0.708;G|0.292	0.292	strong	BFAR,colon,carcinoma,0,1	BFAR	38	1	NM_016561	exon3	c.T419G	p.M140R	AGCAGATGGGAGG	.	PASS	Atlas-SNP
GOLGA3	2802	hgsc.bcm.edu	37	12	133393323	133393323	+	Missense_Mutation	SNP	C	C	T	rs2291256	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	68	171	0	0.412121	0	C|0.932;T|0.068	0.068	strong	.	GOLGA3	234	.	NM_001172557	exon3	c.G209A	p.G70E	GTTGGCCCGTTCT	.	PASS	Atlas-SNP
QSOX2	169714	hgsc.bcm.edu	37	9	139100805	139100805	+	Silent	SNP	T	T	C	rs9696116	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	33	73	0	0.434211	0	T|0.789;C|0.211	0.211	strong	.	QSOX2	63	.	NM_181701	exon12	c.A1866G	p.P622P	GCTCTCTGGAAGG	.	PASS	Atlas-SNP
PDGFC	56034	hgsc.bcm.edu	37	4	157684248	157684248	+	Silent	SNP	T	T	C	rs3815861	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	61	112	1	0.521368	0.00892857	A|0.000;C|0.171;T|0.829	0.171	strong	PDGFC,NS,carcinoma,0,1	PDGFC	46	1	NM_016205	exon6	c.A1032G	p.G344G	CTATCCTCCTGTG	.	scavenged	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121415720	121415720	+	Missense_Mutation	SNP	T	T	C	rs3732410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	364	179	349	0	0.491758	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
ZMYND15	84225	hgsc.bcm.edu	37	17	4645324	4645324	+	Silent	SNP	T	T	C	rs3826517	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	51	99	0	0.455357	0	T|0.693;C|0.307	0.307	strong	.	ZMYND15	87	.	NM_001136046	exon4	c.T942C	p.H314H	CTGCCATGTGTGT	.	PASS	Atlas-SNP
GGA2	23062	hgsc.bcm.edu	37	16	23504719	23504719	+	Missense_Mutation	SNP	G	G	C	rs143003037		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	34	76	0	0.4	0	G|1.000;C|0.000	0.000	weak	GGA2,mucosal,malignant_melanoma,0,3	GGA2	49	3	NM_015044	exon4	c.C313G	p.R105G	GGAAACGAAATTT	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17257840	17257840	+	Missense_Mutation	SNP	C	C	G	rs143501240	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	312	151	225	0	0.483974	0	C|0.968;G|0.032	0.032	strong	.	CROCC	185	.	NM_014675	exon8	c.C904G	p.Q302E	TGGAGGCAGGTGG	.	PASS	Atlas-SNP
SNX18	112574	hgsc.bcm.edu	37	5	53815495	53815495	+	Missense_Mutation	SNP	A	A	C	rs2548612	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	73	152	0	0.477124	0	A|0.480;C|0.520	0.520	strong	.	SNX18	102	.	NM_052870	exon1	c.A1713C	p.E571D	TTCAGAATCATAT	.	PASS	Atlas-SNP
VPS13B	157680	hgsc.bcm.edu	37	8	100454804	100454804	+	Missense_Mutation	SNP	A	A	G	rs61759485	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	75	134	0	0.5	0	A|0.996;G|0.004	0.004	strong	.	VPS13B	811	.	NM_152564	exon23	c.A3386G	p.K1129R	GGCACAAGTATAT	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40406019	40406019	+	Silent	SNP	G	G	A	rs2355719	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	881	374	554	1	0.424518	0.00180505	G|0.717;A|0.283	0.283	strong	.	FCGBP	416	.	NM_003890	exon10	c.C4827T	p.C1609C	GCACGTGCACTGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	135	338	0	0.978261	0	A|0.574;G|0.426	0.426	strong	.	GPR50	195	.	NM_004224	exon2	c.A1594G	p.T532A	AAGCCCACTGCTG	.	PASS	Atlas-SNP
DNASE2B	58511	hgsc.bcm.edu	37	1	84864256	84864256	+	Missense_Mutation	SNP	G	G	C	rs3738573	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	26	81	0	0.313253	0	G|0.694;C|0.306	0.306	strong	DNASE2B_ENST00000370665,NS,carcinoma,0,1	DNASE2B	40	1	NM_021233	exon1	c.G9C	p.Q3H	GAAACAGAAAATG	.	PASS	Atlas-SNP
KLHL38	340359	hgsc.bcm.edu	37	8	124664130	124664130	+	Missense_Mutation	SNP	C	C	T	rs11780509	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	67	92	0	0.985294	0	C|0.260;T|0.740	0.740	strong	.	KLHL38	81	.	NM_001081675	exon1	c.G1037A	p.R346K	AGACTCCTCCCTG	.	PASS	Atlas-SNP
ACPP	55	hgsc.bcm.edu	37	3	132075707	132075707	+	Silent	SNP	A	A	G	rs2071505	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	64	115	0	0.576577	0	A|0.554;G|0.446	0.446	strong	.	ACPP	118	.	NM_001099	exon10	c.A1146G	p.E382E	TACTGAAGACAGT	.	PASS	Atlas-SNP
TNFRSF25	8718	hgsc.bcm.edu	37	1	6524688	6524688	+	Silent	SNP	T	T	C	rs3170675	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	57	116	0	0.703704	0	T|0.965;C|0.035	0.035	strong	.	TNFRSF25	22	.	NM_148966	exon4	c.A387G	p.Q129Q	GACACATTGGCTG	.	PASS	Atlas-SNP
TNR	7143	hgsc.bcm.edu	37	1	175335234	175335234	+	Silent	SNP	C	C	T	rs1385541	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	226	116	199	0	0.513274	0	C|0.809;T|0.191	0.191	strong	.	TNR	399	.	NM_003285	exon11	c.G2094A	p.S698S	GGTCTCCGAGGAG	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82544987	82544987	+	Silent	SNP	A	A	G	rs17156844	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	92	205	0	0.494624	0	A|0.591;G|0.409	0.409	strong	.	PCLO	1506	.	NM_014510	exon7	c.T12315C	p.H4105H	ATAACTATGCAAT	.	PASS	Atlas-SNP
OXCT1	5019	hgsc.bcm.edu	37	5	41862819	41862819	+	Missense_Mutation	SNP	G	G	A	rs76956231	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	61	160	0	0.488	0	G|0.994;A|0.006	0.006	strong	OXCT1,NS,carcinoma,+1,1	OXCT1	54	1	NM_000436	exon2	c.C112T	p.R38C	TATGGCGATGAGC	.	PASS	Atlas-SNP
TYRO3	7301	hgsc.bcm.edu	37	15	41865525	41865525	+	Missense_Mutation	SNP	G	G	T	rs62001448	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	10	86	0	0.0854701	0	G|0.915;T|0.085	0.085	strong	.	TYRO3	169	.	NM_006293	exon17	c.G2005T	p.V669L	ATGACAGTGTGTG	.	PASS	Atlas-SNP
POLL	27343	hgsc.bcm.edu	37	10	103340144	103340144	+	Silent	SNP	A	A	G	rs3730476	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	205	164	0	0.995146	0	A|0.771;G|0.229	0.229	strong	.	POLL	43	.	NM_013274	exon8	c.T1224C	p.S408S	CAGCCCAGAGTTA	.	PASS	Atlas-SNP
ZNF318	24149	hgsc.bcm.edu	37	6	43305520	43305520	+	Silent	SNP	C	C	T	rs35650765	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	88	148	1	0.470588	0.00675676	C|0.970;T|0.030	0.030	strong	ZNF318,colon,carcinoma,0,1	ZNF318	175	1	NM_014345	exon10	c.G6216A	p.P2072P	ATCTAACGGAAAC	.	scavenged	Atlas-SNP
APOL3	80833	hgsc.bcm.edu	37	22	36537871	36537871	+	Missense_Mutation	SNP	C	C	T	rs140252051	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	64	119	0	0.528926	0	C|0.997;T|0.003	0.003	strong	APOL3_ENST00000349314,caecum,carcinoma,0,4	APOL3	60	4	NM_145640	exon3	c.G586A	p.A196T	AGGCAGCGCCAGT	.	PASS	Atlas-SNP
SLC38A8	146167	hgsc.bcm.edu	37	16	84063130	84063130	+	Missense_Mutation	SNP	C	C	G	rs11862366	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	45	74	0	0.535714	0	C|0.939;G|0.061	0.061	strong	.	SLC38A8	60	.	NM_001080442	exon5	c.G659C	p.S220T	AAGACACTGAACA	.	PASS	Atlas-SNP
CAMK2G	818	hgsc.bcm.edu	37	10	75632760	75632760	+	Silent	SNP	C	C	T	rs2675671	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	117	115	0	1	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
MON2	23041	hgsc.bcm.edu	37	12	62894636	62894636	+	Silent	SNP	T	T	A	rs17120341	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	49	149	0	0.365672	0	T|0.868;A|0.132	0.132	strong	.	MON2	160	.	NM_015026	exon6	c.T639A	p.A213A	TTGTGCTAAAGAT	.	PASS	Atlas-SNP
QRICH2	84074	hgsc.bcm.edu	37	17	74289648	74289648	+	Missense_Mutation	SNP	G	G	A	rs118098530	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	375	190	332	0	0.506667	0	G|0.984;A|0.016	0.016	strong	.	QRICH2	143	.	NM_032134	exon4	c.C662T	p.P221L	CGATCTGGCCTTA	.	PASS	Atlas-SNP
CAPN10	11132	hgsc.bcm.edu	37	2	241537421	241537421	+	Silent	SNP	G	G	A	rs3749166	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	185	139	0	0.984043	0	G|0.469;A|0.531	0.531	strong	.	CAPN10	105	.	NM_023083	exon10	c.G1860A	p.A620A	GCCTGCGGGCACC	.	PASS	Atlas-SNP
UGT2B7	7364	hgsc.bcm.edu	37	4	69962610	69962610	+	Silent	SNP	A	A	G	rs28365063	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	92	202	0	0.44878	0	A|0.850;G|0.150	0.150	strong	.	UGT2B7	79	.	NM_001074	exon1	c.A372G	p.R124R	AACTAGAAAGTTC	.	PASS	Atlas-SNP
LOXL2	4017	hgsc.bcm.edu	37	8	23225745	23225745	+	Silent	SNP	C	C	T	rs2294133	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	66	147	0	0.464789	0	C|0.872;T|0.128	0.128	strong	.	LOXL2	97	.	NM_002318	exon2	c.G120A	p.P40P	AGGAGCCGGTTGC	.	PASS	Atlas-SNP
FAM57B	83723	hgsc.bcm.edu	37	16	30037128	30037128	+	Silent	SNP	A	A	C	rs11544328	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	24	57	0	0.585366	0	A|0.543;C|0.457	0.457	strong	.	FAM57B	26	.	NM_031478	exon4	c.T459G	p.G153G	TCCCTTACCCTGT	.	PASS	Atlas-SNP
OR56A1	120796	hgsc.bcm.edu	37	11	6048056	6048056	+	Silent	SNP	T	T	C	rs11040335	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	104	134	0	0.971963	0	T|0.695;C|0.305	0.305	strong	.	OR56A1	73	.	NM_001001917	exon1	c.A879G	p.A293A	GTTCAATGCAGGA	.	PASS	Atlas-SNP
ARHGAP42	143872	hgsc.bcm.edu	37	11	100847069	100847069	+	Missense_Mutation	SNP	G	G	A	rs569336	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	79	206	0	0.451429	0	G|0.552;A|0.448	0.448	strong	.	ARHGAP42	32	.	NM_152432	exon20	c.G2137A	p.V713I	GGAGACGTTTCCC	.	PASS	Atlas-SNP
CYP1A1	1543	hgsc.bcm.edu	37	15	75012939	75012939	+	Missense_Mutation	SNP	C	C	T	rs140680363		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	3	110	0	0.0220588	0	C|1.000;T|0.000	0.000	weak	CYP1A1,colon,carcinoma,0,3	CYP1A1	60	3	NM_000499	exon7	c.G1430A	p.R477Q	TCCACCCGTTGCA	.	scavenged	Atlas-SNP
TP53BP1	7158	hgsc.bcm.edu	37	15	43733730	43733730	+	Missense_Mutation	SNP	A	A	G	rs45482998	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	57	109	0	0.558824	0	A|0.991;G|0.009	0.009	strong	.	TP53BP1	157	.	NM_001141980	exon15	c.T3092C	p.V1031A	CTGGCAACAGACT	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57081197	57081197	+	Missense_Mutation	SNP	G	G	C	rs4939134	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	90	259	0	0.486486	0	G|0.586;C|0.414	0.414	strong	.	TNKS1BP1	148	.	NM_033396	exon5	c.C965G	p.T322S	TCAGGAGTCTGGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	33	65	0	0.464789	0	G|0.603;T|0.397	0.397	strong	.	FBN3	300	.	NM_032447	exon46	c.C5873A	p.P1958H	AAGCCAGGGGGAC	.	PASS	Atlas-SNP
NOX5	79400	hgsc.bcm.edu	37	15	69327825	69327825	+	Silent	SNP	C	C	T	rs311889	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	138	99	0	1	0	T|0.832;G|0.000	0.832	strong	.	NOX5	60	.	NM_024505	exon6	c.C987T	p.T329T	GCACACCGTGGCT	.	PASS	Atlas-SNP
C1orf106	55765	hgsc.bcm.edu	37	1	200880869	200880869	+	Missense_Mutation	SNP	A	A	C	rs45547233	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	58	134	0	0.495726	0	A|0.921;C|0.079	0.079	strong	C1orf106,caecum,carcinoma,0,1	C1orf106	59	1	NM_018265	exon9	c.A1545C	p.R515S	CAGCAGAGAGCTG	.	PASS	Atlas-SNP
RIMS1	22999	hgsc.bcm.edu	37	6	72892796	72892796	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	3	73	0	0.0535714	0	.	.	none	RIMS1,caecum,carcinoma,0,1	RIMS1	278	1	NM_014989	exon6	c.C1622T	p.P541L	CGACGCCCGAGTA	.	scavenged	Atlas-SNP
MAGEB16	139604	hgsc.bcm.edu	37	X	35820425	35820425	+	Missense_Mutation	SNP	C	C	T	rs1410961	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	78	175	1	1	0.00571429	C|0.371;0|0.010	.	strong	.	MAGEB16	64	.	NM_001099921	exon2	c.C112T	p.L38F	AAGACCCTCCTCT	.	PASS	Atlas-SNP
C17orf70	80233	hgsc.bcm.edu	37	17	79511135	79511135	+	Silent	SNP	A	A	G	rs8077430	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	52	41	0	0.52	0	A|0.314;G|0.686	0.686	strong	C17orf70_ENST00000327787,NS,adenoma,0,1	C17orf70	79	1	NM_025161	exon7	c.T2322C	p.T774T	CAGGTCAGTCATG	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195453288	195453288	+	Missense_Mutation	SNP	A	A	C	rs3828405	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	33	201	0	0.255814	0	A|0.928;C|0.072	0.072	strong	MUC20,NS,carcinoma,0,1	MUC20	84	1	NM_152673	exon3	c.A1301C	p.D434A	GCAGGGACCCTCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	67	145	0	0.577586	0	A|0.816;C|0.184	0.184	strong	.	KIF2C	68	.	NM_006845	exon14	c.A1345C	p.I449L	AAGATGATCGACA	.	PASS	Atlas-SNP
FOXD4	2298	hgsc.bcm.edu	37	9	116832	116832	+	Missense_Mutation	SNP	T	T	C	rs4742632	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	109	114	0	0.619318	0	T|0.743;C|0.257	0.257	strong	.	FOXD4	75	.	NM_207305	exon1	c.A1288G	p.S430G	GGGAACTGGGCGT	.	PASS	Atlas-SNP
CCDC9	26093	hgsc.bcm.edu	37	19	47774572	47774572	+	Silent	SNP	C	C	T	rs60930438	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	32	72	0	0.463768	0	C|0.569;G|0.000;T|0.431	0.431	strong	.	CCDC9	37	.	NM_015603	exon12	c.C1233T	p.D411D	TGAAGACGAGGGG	.	PASS	Atlas-SNP
C5orf60	285679	hgsc.bcm.edu	37	5	179069468	179069468	+	Missense_Mutation	SNP	A	A	G	rs62405726	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	26	88	0	0.238532	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
POP1	10940	hgsc.bcm.edu	37	8	99153088	99153088	+	Missense_Mutation	SNP	A	A	C	rs17184326	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	30	56	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
SLC47A2	146802	hgsc.bcm.edu	37	17	19584752	19584752	+	Silent	SNP	G	G	C	rs34416664	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	68	135	0	0.511278	0	G|0.993;C|0.007	0.007	strong	.	SLC47A2	61	.	NM_152908	exon15	c.C1428G	p.A476A	GACACAGGCCAGC	.	PASS	Atlas-SNP
ACAP1	9744	hgsc.bcm.edu	37	17	7246851	7246851	+	Silent	SNP	C	C	T	rs3809828	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	67	129	0	0.553719	0	C|0.944;T|0.056	0.056	strong	.	ACAP1	66	.	NM_014716	exon6	c.C498T	p.Y166Y	TGGGTACCGGGGA	.	PASS	Atlas-SNP
OR2D3	120775	hgsc.bcm.edu	37	11	6942476	6942476	+	Missense_Mutation	SNP	C	C	A	rs10839658	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	156	288	1	0.527027	0.00347222	C|0.509;A|0.491	0.491	strong	.	OR2D3	51	.	NM_001004684	exon1	c.C244A	p.L82I	AGAAATCTCTCCT	.	PASS	Atlas-SNP
PATZ1	23598	hgsc.bcm.edu	37	22	31741067	31741067	+	Silent	SNP	G	G	A	rs714909	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	149	158	1	1	0.00632911	G|0.818;A|0.182	0.182	strong	.	PATZ1	24	.	NM_032050	exon1	c.C522T	p.L174L	GCGAAAGAGCATT	.	PASS	Atlas-SNP
KRTAP9-2	83899	hgsc.bcm.edu	37	17	39383073	39383073	+	Missense_Mutation	SNP	G	G	C	rs9902235	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	120	91	0	0.967742	0	G|0.287;C|0.713	0.713	strong	.	KRTAP9-2	24	.	NM_031961	exon1	c.G167C	p.C56S	CAACTTGCTGTCA	.	PASS	Atlas-SNP
TSHZ1	10194	hgsc.bcm.edu	37	18	72998886	72998886	+	Silent	SNP	T	T	C	rs3809997	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	29	13	42	0	0.448276	0	T|0.630;C|0.370	0.370	strong	.	TSHZ1	104	.	NM_005786	exon2	c.T1389C	p.P463P	GCCGCCTGTGGCT	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70154480	70154480	+	Missense_Mutation	SNP	A	A	G	rs200469748	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	316	31	254	0	0.0981013	0	A|0.741;G|0.260	0.260	strong	PDPR,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	PDPR	66	1	NM_017990	exon3	c.A85G	p.T29A	AACAGCACGTCAG	.	scavenged	Atlas-SNP
DCAF17	80067	hgsc.bcm.edu	37	2	172330393	172330393	+	Silent	SNP	A	A	G	rs3731983	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	69	209	0	0.38764	0	A|0.804;G|0.196	0.196	strong	.	DCAF17	41	.	NM_025000	exon10	c.A999G	p.Q333Q	GATCCAAGAAATG	.	PASS	Atlas-SNP
ZNF641	121274	hgsc.bcm.edu	37	12	48736985	48736985	+	Missense_Mutation	SNP	T	T	G	rs2732481	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	105	200	0	0.456522	0	T|0.801;G|0.199	0.199	strong	.	ZNF641	28	.	NM_152320	exon7	c.A1088C	p.Q363P	GCACGCTGCCGTT	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151962257	151962257	+	Silent	SNP	C	C	T	rs62478357		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	389	24	349	0	0.0616967	0	.	.	weak	MLL3_ENST00000355193,NS,carcinoma,-1,2	MLL3	1564	2	NM_170606	exon8	c.G1050A	p.P350P	GTCTCCCGGGCTG	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509955	195509955	+	Silent	SNP	A	A	C	rs71635078	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	441	296	119	0	0.671202	0	C|1.000;|0.000	1.000	weak	.	MUC4	1505	.	NM_018406	exon2	c.T8496G	p.S2832S	AGGAAGAGAGGTG	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32489825	32489825	+	Missense_Mutation	SNP	T	T	A	rs148834340	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	42	36	0	0.792453	0	T|0.917;A|0.083	0.083	strong	.	HLA-DRB5	31	.	NM_002125	exon2	c.A227T	p.Y76F	GCCCGGTACTCCC	.	PASS	Atlas-SNP
ZNF302	55900	hgsc.bcm.edu	37	19	35175208	35175208	+	Missense_Mutation	SNP	A	A	G	rs2290652	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	128	273	0	0.481203	0	A|0.726;G|0.274	0.274	strong	.	ZNF302	27	.	NM_018443	exon5	c.A266G	p.Y89C	ATATTTATGATGA	.	PASS	Atlas-SNP
PRKRIP1	79706	hgsc.bcm.edu	37	7	102036877	102036877	+	Missense_Mutation	SNP	T	T	G	rs6951185	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	46	96	0	0.45098	0	T|0.938;G|0.062	0.062	strong	.	PRKRIP1	25	.	NM_024653	exon1	c.T19G	p.S7A	GCCGCCTCCTCGG	.	PASS	Atlas-SNP
POLR3B	55703	hgsc.bcm.edu	37	12	106838340	106838340	+	Silent	SNP	T	T	C	rs10861607	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	58	122	0	0.423358	0	T|0.752;C|0.248	0.248	strong	POLR3B,caecum,carcinoma,0,1	POLR3B	123	1	NM_018082	exon19	c.T2055C	p.Y685Y	CACTTATCAGTGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	12	43	0	0.352941	0	G|0.812;T|0.188	0.188	strong	.	METTL21D	11	.	NM_024558	exon1	c.C188A	p.A63D	GCGTGGGCCCCGT	.	PASS	Atlas-SNP
COX4I2	84701	hgsc.bcm.edu	37	20	30232673	30232673	+	Missense_Mutation	SNP	G	G	A	rs11907253	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	58	107	0	0.423358	0	G|0.919;A|0.081	0.081	strong	.	COX4I2	18	.	NM_032609	exon5	c.G482A	p.R161H	CCTCCCGCTGGGA	.	PASS	Atlas-SNP
PRM3	58531	hgsc.bcm.edu	37	16	11367195	11367195	+	Missense_Mutation	SNP	G	G	C	rs35598356	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	69	106	0	0.5	0	G|0.884;C|0.116	0.116	strong	.	PRM3	8	.	NM_021247	exon1	c.C258G	p.H86Q	GTCCTTGTGGCCC	.	PASS	Atlas-SNP
GTF2IRD1	9569	hgsc.bcm.edu	37	7	73944185	73944185	+	Silent	SNP	T	T	C	rs2240357	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	38	77	0	0.506667	0	T|0.735;C|0.265	0.265	strong	GTF2IRD1,caecum,carcinoma,+1,1	GTF2IRD1	91	1	NM_001199207	exon9	c.T1308C	p.Y436Y	CACTTATGGAGTC	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144993069	144993069	+	Silent	SNP	G	G	A	rs28455570	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	28	49	0	0.528302	0	G|0.941;A|0.059	0.059	strong	.	PLEC	1144	.	NM_201380	exon32	c.C11331T	p.Y3777Y	GTAGTCGTAGGAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	20	43	0	0.425532	0	G|0.705;A|0.295	0.295	strong	.	LRG1	25	.	NM_052972	exon2	c.C397T	p.P133S	GGCCCGGGGGCAG	.	PASS	Atlas-SNP
UROC1	131669	hgsc.bcm.edu	37	3	126207049	126207049	+	Silent	SNP	G	G	A	rs139120643	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	71	114	0	0.522059	0	G|0.999;A|0.001	0.001	strong	UROC1,NS,carcinoma,0,1	UROC1	150	1	NM_001165974	exon19	c.C1962T	p.G654G	GCCCACGCCCCCT	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27687225	27687225	+	Missense_Mutation	SNP	A	A	G	rs2505323	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	71	127	0	0.518248	0	A|0.419;G|0.581	0.581	strong	.	PTCHD3	140	.	NM_001034842	exon4	c.T2302C	p.X768Q	GTAATTAGAATAA	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139397707	139397707	+	Silent	SNP	G	G	A	rs10521	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	35	82	0	0.402299	0	G|0.466;A|0.534	0.534	strong	NOTCH1_ENST00000277541,colon,carcinoma,0,19	NOTCH1	1980	19	NM_017617	exon27	c.C5094T	p.D1698D	GGCCACGTCGGTG	.	PASS	Atlas-SNP
ZCCHC2	54877	hgsc.bcm.edu	37	18	60241333	60241333	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	2	176	0	0.0134228	0	.	.	none	ZCCHC2,NS,carcinoma,+1,1	ZCCHC2	64	1	NM_017742	exon13	c.T2019C	p.T673T	AACAACTAGGTTT	.	scavenged	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122372176	122372176	+	Silent	SNP	C	C	T	rs78614343	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	17	68	0	0.326923	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
RAI1	10743	hgsc.bcm.edu	37	17	17707105	17707105	+	Silent	SNP	T	T	C	rs3818717	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	52	110	0	0.481481	0	T|0.635;C|0.365	0.365	strong	.	RAI1	121	.	NM_030665	exon4	c.T5601C	p.I1867I	CACCATTGGGTGC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29912326	29912326	+	Silent	SNP	G	G	A	rs1059846	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	527	99	524	0	0.187856	0	G|0.880;A|0.120	0.120	strong	.	HLA-A	89	.	NM_001242758	exon5	c.G945A	p.L315L	TGGCCTGGTTCTC	.	PASS	Atlas-SNP
COL6A6	131873	hgsc.bcm.edu	37	3	130284284	130284284	+	Missense_Mutation	SNP	G	G	A	rs9830253	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	92	72	0	1	0	G|0.446;A|0.554	0.554	strong	COL6A6_ENST00000358511,right_upper_lobe,carcinoma,-1,2	COL6A6	497	2	NM_001102608	exon3	c.G1108A	p.A370T	GAGGGCGCCAGCG	.	PASS	Atlas-SNP
GRHL3	57822	hgsc.bcm.edu	37	1	24680915	24680915	+	Silent	SNP	C	C	T	rs12030057	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	39	68	0	0.573529	0	C|0.754;T|0.246	0.246	strong	.	GRHL3	69	.	NM_021180	exon16	c.C1761T	p.V587V	CCACGTCGCCTTC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	52	121	0	0.448276	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
TBC1D26	353149	hgsc.bcm.edu	37	17	15645289	15645289	+	Missense_Mutation	SNP	G	G	A	rs17855672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	69	68	0	1	0	G|0.722;A|0.278	0.278	strong	.	TBC1D26	16	.	NM_178571	exon11	c.G700A	p.G234S	TCGAGAGGCTCCT	.	PASS	Atlas-SNP
LRR1	122769	hgsc.bcm.edu	37	14	50074520	50074520	+	Missense_Mutation	SNP	C	C	T	rs7148147	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	42	83	0	0.466667	0	C|0.792;T|0.208	0.208	strong	.	LRR1	35	.	NM_152329	exon3	c.C685T	p.R229W	TCACTTCGGAGTT	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134649709	134649709	+	Missense_Mutation	SNP	C	C	T	rs76581191	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	55	64	0	0.647059	0	C|0.990;T|0.010	0.010	strong	TTC40,NS,carcinoma,0,2	TTC40	100	2	NM_001200049	exon46	c.G6550A	p.G2184S	CAGCGCCGTACAG	.	PASS	Atlas-SNP
KRT2	3849	hgsc.bcm.edu	37	12	53045777	53045777	+	Silent	SNP	G	G	A	rs11835758	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	23	42	0	0.469388	0	G|0.659;A|0.341	0.341	strong	.	KRT2	94	.	NM_000423	exon1	c.C150T	p.G50G	GCCCCCGCCACCA	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54745682	54745682	+	Missense_Mutation	SNP	C	C	T	rs3826749	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	768	101	719	0	0.13151	0	C|0.904;T|0.096	0.096	strong	.	LILRA6	75	.	NM_024318	exon4	c.G428A	p.R143Q	CCACATCGGAGGG	.	PASS	Atlas-SNP
DNAAF1	123872	hgsc.bcm.edu	37	16	84209815	84209815	+	Missense_Mutation	SNP	C	C	G	rs2288021	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	81	143	0	0.48503	0	C|0.848;G|0.152	0.152	strong	.	DNAAF1	81	.	NM_178452	exon11	c.C1975G	p.L659V	GGCCAGCTACTGA	.	PASS	Atlas-SNP
GPLD1	2822	hgsc.bcm.edu	37	6	24445829	24445829	+	Silent	SNP	G	G	A	rs9358767	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	75	128	0	0.446429	0	G|0.859;A|0.140	0.140	strong	.	GPLD1	91	.	NM_001503	exon20	c.C1965T	p.H655H	CAGTACGTGGCCA	.	PASS	Atlas-SNP
CCL8	6355	hgsc.bcm.edu	37	17	32647831	32647831	+	Missense_Mutation	SNP	A	A	C	rs1133763	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	217	203	1	1	0.00492611	A|0.839;C|0.161	0.161	strong	.	CCL8	12	.	NM_005623	exon3	c.A205C	p.K69Q	AAGACCAAACGGG	.	PASS	Atlas-SNP
PTCHD2	57540	hgsc.bcm.edu	37	1	11596455	11596455	+	Silent	SNP	C	C	T	rs2594310	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	12	63	0	0.222222	0	C|0.842;T|0.158	0.158	strong	.	PTCHD2	193	.	NM_020780	exon21	c.C3891T	p.A1297A	CAGTGCCCTCACC	.	PASS	Atlas-SNP
RBM23	55147	hgsc.bcm.edu	37	14	23375564	23375564	+	Missense_Mutation	SNP	G	G	A	rs72681969	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	39	80	0	0.438202	0	G|0.971;A|0.029	0.029	strong	.	RBM23	44	.	NM_001077351	exon5	c.C241T	p.R81W	GATCCCGATCTCG	.	PASS	Atlas-SNP
APCDD1	147495	hgsc.bcm.edu	37	18	10487918	10487918	+	Silent	SNP	C	C	T	rs3185480	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	47	104	0	0.439252	0	C|0.613;T|0.387	0.387	strong	.	APCDD1	57	.	NM_153000	exon5	c.C1428T	p.L476L	GGACCTCGCAGAA	.	PASS	Atlas-SNP
PSMB6	5694	hgsc.bcm.edu	37	17	4699552	4699552	+	Silent	SNP	G	G	A	rs3169950	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	18	54	0	0.391304	0	A|0.322;C|0.010;G|0.668;T|0.000	0.322	strong	.	PSMB6	20	.	NM_002798	exon1	c.G63A	p.A21A	GGAGGCGTTCACT	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45216115	45216115	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	2	45	1	0.0606061	0.0222222	.	.	none	CDC27_ENST00000531206,NS,carcinoma,0,2	CDC27	337	2	NM_001114091	exon13	c.A1712T	p.N571I	GGCGAATTTTTAT	.	scavenged	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32548544	32548544	+	Missense_Mutation	SNP	T	T	G	rs199873800	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	716	55	417	0	0.0768156	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
PIK3CG	5294	hgsc.bcm.edu	37	7	106513011	106513011	+	Silent	SNP	C	C	T	rs1129293	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	82	158	0	0.453039	0	C|0.757;T|0.243	0.243	strong	PIK3CG,rectum,carcinoma,+1,1	PIK3CG	279	1	NM_002649	exon3	c.C2025T	p.S675S	TGATAGCGCCCTT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9077060	9077060	+	Silent	SNP	C	C	T	rs2591596	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	65	149	0	0.492424	0	C|0.743;T|0.257	0.257	strong	.	MUC16	4315	.	NM_024690	exon3	c.G10386A	p.V3462V	CAGAGACACTAGT	.	PASS	Atlas-SNP
FIGLA	344018	hgsc.bcm.edu	37	2	71012734	71012734	+	Missense_Mutation	SNP	C	C	G	rs7566476	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	195	212	1	0.994898	0.00471698	C|0.255;G|0.745	0.745	strong	.	FIGLA	23	.	NM_001004311	exon3	c.G422C	p.S141T	TCAGAACTGTTGT	.	PASS	Atlas-SNP
UGT1A7	54577	hgsc.bcm.edu	37	2	234590616	234590616	+	Silent	SNP	C	C	A	rs7577677	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	236	111	196	0	0.470339	0	C|0.686;A|0.314	0.314	strong	.	UGT1A7	74	.	NM_019077	exon1	c.C33A	p.P11P	CCTTCCCCTATAT	.	PASS	Atlas-SNP
MAATS1	89876	hgsc.bcm.edu	37	3	119426307	119426307	+	Silent	SNP	T	T	C	rs9848716	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	44	69	0	0.52381	0	T|0.424;C|0.576	0.576	strong	.	.	.	.	NM_033364	exon3	c.T258C	p.Y86Y	AAGATATTCTCTA	.	PASS	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	37	2	33540307	33540307	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	21	118	0	0.162791	0	.	.	none	.	LTBP1	317	.	NM_206943	exon24	c.C3701T	p.S1234L	GTTTCTCAATCTC	.	PASS	Atlas-SNP
ZNF354A	6940	hgsc.bcm.edu	37	5	178140090	178140090	+	Silent	SNP	C	C	T	rs1132336	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	35	102	1	0.346535	0.00980392	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	.	scavenged	Atlas-SNP
MST1R	4486	hgsc.bcm.edu	37	3	49940078	49940078	+	Missense_Mutation	SNP	C	C	T	rs2230593	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	80	103	0	0.583942	0	C|0.956;T|0.044	0.044	strong	.	MST1R	205	.	NM_001244937	exon1	c.G965A	p.R322Q	GCCACCCGCAGCA	.	PASS	Atlas-SNP
SERPINA11	256394	hgsc.bcm.edu	37	14	94912896	94912896	+	Missense_Mutation	SNP	T	T	G	rs1885137	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	99	179	0	0.521053	0	G|0.312;N|0.000	0.312	strong	.	SERPINA11	53	.	NM_001080451	exon3	c.A689C	p.E230A	AAACTTTCCTGCT	.	PASS	Atlas-SNP
C6orf15	29113	hgsc.bcm.edu	37	6	31079644	31079644	+	Silent	SNP	G	G	A	rs2233980	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	62	86	0	0.508197	0	G|0.926;A|0.074	0.074	strong	.	C6orf15	29	.	NM_014070	exon2	c.C492T	p.P164P	AGCCTTGGGTGAG	.	PASS	Atlas-SNP
PFKM	5213	hgsc.bcm.edu	37	12	48539482	48539482	+	Silent	SNP	T	T	G	rs8716	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	36	103	0	0.444444	0	T|0.746;G|0.254	0.254	strong	.	PFKM	117	.	NM_001166686	exon25	c.T2547G	p.A849A	GGAAGCTGCCGTC	.	PASS	Atlas-SNP
ADCK4	79934	hgsc.bcm.edu	37	19	41211056	41211056	+	Missense_Mutation	SNP	T	T	C	rs3865452	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	51	116	0	0.485714	0	T|0.557;C|0.443	0.443	strong	ADCK4_ENST00000324464,NS,carcinoma,0,4	ADCK4	92	4	NM_024876	exon7	c.A521G	p.H174R	AAGATGTGCTGCA	.	PASS	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	37	9	100074446	100074446	+	Silent	SNP	C	C	T	rs3747504	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	40	85	0	0.454545	0	C|0.766;T|0.234	0.234	strong	KIAA1529,NS,carcinoma,0,1	.	.	1	NM_020893	exon4	c.C444T	p.I148I	CACCATCGCTGCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	91	110	2	1	0.0181818	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
WFIKKN1	117166	hgsc.bcm.edu	37	16	681280	681280	+	Silent	SNP	G	G	T	rs4984905	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	13	39	0	0.764706	0	G|0.669;T|0.331	0.331	strong	.	WFIKKN1	30	.	NM_053284	exon1	c.G27T	p.P9P	CCTGCCGCTCCTG	.	PASS	Atlas-SNP
CHRDL1	91851	hgsc.bcm.edu	37	X	109931856	109931856	+	Silent	SNP	T	T	C	rs5943053	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	148	260	0	1	0	C|0.491;G|0.000;T|0.508	0.491	strong	.	CHRDL1	78	.	NM_001143981	exon9	c.A954G	p.K318K	GCAGCATTTTCCG	.	PASS	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	37	19	17004049	17004049	+	Missense_Mutation	SNP	T	T	C	rs1054533	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	48	76	0	0.55814	0	T|0.770;C|0.230	0.230	strong	.	CPAMD8	192	.	NM_015692	exon42	c.A5669G	p.Q1890R	TGTCTCTGAGGGG	.	PASS	Atlas-SNP
PCDHGA2	56113	hgsc.bcm.edu	37	5	140719090	140719090	+	Silent	SNP	G	G	A	rs6861047	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	30	89	0	0.326087	0	G|0.884;A|0.116	0.116	strong	.	PCDHGA2	205	.	NM_018915	exon1	c.G552A	p.R184R	GCGAAGGGGAGCT	.	PASS	Atlas-SNP
SLCO2A1	6578	hgsc.bcm.edu	37	3	133670073	133670073	+	Silent	SNP	T	T	C	rs6767412	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	98	111	0	0.98	0	T|0.773;C|0.227	0.227	strong	SLCO2A1,NS,carcinoma,0,1	SLCO2A1	72	1	NM_005630	exon6	c.A840G	p.R280R	CATTGCTCGAGGG	.	PASS	Atlas-SNP
DPCR1	135656	hgsc.bcm.edu	37	6	30919391	30919391	+	Silent	SNP	G	G	A	rs3094086	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	77	178	0	0.396907	0	G|0.932;A|0.068	0.068	strong	.	DPCR1	99	.	NM_080870	exon2	c.G3150A	p.S1050S	CCCATCGGCCAAT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	32	85	0	0.603774	0	G|0.506;C|0.494	0.494	strong	.	PKD1L2	361	.	NM_001076780	exon5	c.C901G	p.P301A	TCGGCGGGTTGTA	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225328440	225328440	+	Missense_Mutation	SNP	T	T	G	rs75827633	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	10	16	0	0.588235	0	T|0.939;G|0.061	0.061	strong	DNAH14_ENST00000430092,NS,carcinoma,0,1	DNAH14	300	1	NM_001373	exon27	c.T4174G	p.Y1392D	GAGAGATATATAT	.	PASS	Atlas-SNP
LAMA2	3908	hgsc.bcm.edu	37	6	129807714	129807714	+	Silent	SNP	G	G	A	rs2229850	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	57	147	0	0.398601	0	A|0.356;G|0.644;T|0.000	0.356	strong	.	LAMA2	481	.	NM_000426	exon56	c.G7845A	p.P2615P	AGAGCCGAATCTG	.	PASS	Atlas-SNP
ALOX15B	247	hgsc.bcm.edu	37	17	7950377	7950377	+	Silent	SNP	C	C	T	rs11541083	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	39	80	0	0.513158	0	C|0.735;T|0.265	0.265	strong	.	ALOX15B	66	.	NM_001141	exon10	c.C1440T	p.I480I	GCAGATCTGGGGT	.	PASS	Atlas-SNP
PRKCA	5578	hgsc.bcm.edu	37	17	64685078	64685078	+	Silent	SNP	G	G	A	rs2227857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	31	63	0	0.525424	0	G|0.741;A|0.259	0.259	strong	.	PRKCA	82	.	NM_002737	exon8	c.G831A	p.L277L	CAAGTTGCTTAAC	.	PASS	Atlas-SNP
TMCC2	9911	hgsc.bcm.edu	37	1	205238275	205238275	+	Silent	SNP	A	A	G	rs1768586	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	183	226	0	1	0	A|0.748;G|0.252	0.252	strong	.	TMCC2	89	.	NM_014858	exon3	c.A945G	p.A315A	TGTGGCAGAGTAT	.	PASS	Atlas-SNP
C14orf37	145407	hgsc.bcm.edu	37	14	58604730	58604730	+	Silent	SNP	T	T	C	rs137871178	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	36	64	0	0.529412	0	T|0.992;C|0.008	0.008	strong	C14orf37,NS,carcinoma,0,1	C14orf37	87	1	NM_001001872	exon2	c.A1347G	p.Q449Q	CAACAGTTGGTCT	.	PASS	Atlas-SNP
MAD1L1	8379	hgsc.bcm.edu	37	7	1976457	1976457	+	Missense_Mutation	SNP	C	C	T	rs1801368	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	21	40	0	0.4375	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
TMC8	147138	hgsc.bcm.edu	37	17	76130576	76130576	+	Silent	SNP	C	C	T	rs149203228	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	42	82	0	0.482759	0	C|0.998;T|0.002	0.002	strong	TMC8,NS,carcinoma,0,1	TMC8	44	1	NM_152468	exon8	c.C918T	p.N306N	ACTCAACGGGCTC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179432185	179432185	+	Missense_Mutation	SNP	A	A	G	rs12463674	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	47	82	0	0.423423	0	A|0.847;G|0.153	0.153	strong	.	TTN	18412	.	NM_001267550	exon326	c.T78674C	p.I26225T	CACTCAATGGTAG	.	PASS	Atlas-SNP
MELK	9833	hgsc.bcm.edu	37	9	36597284	36597284	+	Silent	SNP	C	C	G	rs139481227	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	35	69	0	0.507246	0	C|0.999;G|0.001	0.001	strong	.	MELK	74	.	NM_014791	exon6	c.C471G	p.P157P	AAAACCCAAGGTA	.	PASS	Atlas-SNP
GALT	2592	hgsc.bcm.edu	37	9	34649442	34649442	+	Missense_Mutation	SNP	A	A	G	rs2070074	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	47	119	0	0.435185	0	A|0.934;G|0.066	0.066	strong	.	GALT	29	.	NM_000155	exon10	c.A940G	p.N314D	AACTGGAACCATT	.	PASS	Atlas-SNP
KIAA1199	57214	hgsc.bcm.edu	37	15	81173354	81173354	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	78	195	0	0.417112	0	.	.	none	.	KIAA1199	118	.	NM_018689	exon5	c.A494G	p.N165S	TTCTGAACAAGAC	.	PASS	Atlas-SNP
USP25	29761	hgsc.bcm.edu	37	21	17236674	17236674	+	Missense_Mutation	SNP	G	G	C	rs142929561	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	26	42	0	0.356164	0	G|0.999;C|0.001	0.001	strong	USP25,NS,carcinoma,-1,1	USP25	156	1	NM_013396	exon19	c.G2425C	p.V809L	GTAGTGGTCTACT	.	PASS	Atlas-SNP
THSD1	55901	hgsc.bcm.edu	37	13	52951802	52951802	+	Missense_Mutation	SNP	T	T	C	rs9536041	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	100	196	0	0.502513	0	T|0.965;C|0.035	0.035	strong	.	THSD1	89	.	NM_018676	exon5	c.A2303G	p.K768R	ACACTCTTGTGAC	.	PASS	Atlas-SNP
PPP2R4	5524	hgsc.bcm.edu	37	9	131909736	131909736	+	Missense_Mutation	SNP	C	C	T	rs2480452	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	29	81	0	0.42029	0	C|0.931;T|0.069	0.069	strong	.	PPP2R4	32	.	NM_178001	exon11	c.C1070T	p.S357L	TCACGTCGGGCTA	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1075747	1075747	+	Missense_Mutation	SNP	T	T	C	rs2856111	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	58	144	0	0.411348	0	T|0.739;C|0.261	0.261	strong	.	MUC2	614	.	NM_002457	exon2	c.T173C	p.L58P	CCGGCCTCTGCGA	.	PASS	Atlas-SNP
FLNC	2318	hgsc.bcm.edu	37	7	128477547	128477547	+	Silent	SNP	T	T	C	rs2291561	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	29	71	2	0.439394	0.028169	T|0.881;C|0.119	0.119	strong	FLNC,NS,carcinoma,0,1	FLNC	339	1	NM_001127487	exon4	c.T795C	p.G265G	ACCTGGTGCCCCT	.	scavenged	Atlas-SNP
ZNF618	114991	hgsc.bcm.edu	37	9	116770785	116770785	+	Silent	SNP	G	G	A	rs3748182	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	114	109	1	1	0.00917431	G|0.655;A|0.345	0.345	strong	.	ZNF618	184	.	NM_133374	exon8	c.G609A	p.T203T	GGCCACGGACGAG	.	PASS	Atlas-SNP
RMDN1	51115	hgsc.bcm.edu	37	8	87497176	87497176	+	Silent	SNP	G	G	A	rs11539113	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	137	172	0	0.985611	0	G|0.596;T|0.065	.	strong	.	.	.	.	NM_016033	exon5	c.C510T	p.C170C	ACTAAGGCAGATT	.	PASS	Atlas-SNP
SPAG16	79582	hgsc.bcm.edu	37	2	214354811	214354811	+	Missense_Mutation	SNP	G	G	A	rs61752199	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	119	279	0	0.474104	0	G|0.984;A|0.016	0.016	strong	.	SPAG16	134	.	NM_024532	exon10	c.G1067A	p.S356N	CAGTGAGCTGGTA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	29	41	0	0.617021	0	C|0.638;A|0.362	0.362	strong	.	CCDC6	44	.	NM_005436	exon1	c.G297T	p.V99V	GATGGTCACGCTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	26	10	35	0	0.384615	0	T|0.902;G|0.098	0.098	strong	.	SVEP1	326	.	NM_153366	exon25	c.A4246C	p.K1416Q	ACCTTTTGCCTGA	.	PASS	Atlas-SNP
RHPN2	85415	hgsc.bcm.edu	37	19	33490585	33490585	+	Nonsense_Mutation	SNP	G	G	A	rs78615454	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1168	250	864	1	0.214041	0.00115741	G|0.856;A|0.144	0.144	strong	RHPN2,NS,haematopoietic_neoplasm,0,1	RHPN2	107	1	NM_033103	exon10	c.C1132T	p.Q378X	TCTCCTGGTGGTC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228468458	228468458	+	Missense_Mutation	SNP	G	G	A	rs1188697	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	32	63	0	0.551724	0	G|0.696;A|0.304	0.304	strong	OBSCN_ENST00000570156,NS,carcinoma,0,3	OBSCN	2142	3	NM_001271223	exon35	c.G9445A	p.V3149M	TGCCACGTGGGCT	.	PASS	Atlas-SNP
SERPINA9	327657	hgsc.bcm.edu	37	14	94929541	94929541	+	Silent	SNP	G	G	A	rs2224418	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	246	243	270	0	0.987805	0	G|0.310;A|0.690	0.690	strong	.	SERPINA9	105	.	NM_175739	exon5	c.C1197T	p.G399G	AGAGGGGCCATCC	.	PASS	Atlas-SNP
CDH12	1010	hgsc.bcm.edu	37	5	21760731	21760731	+	Silent	SNP	T	T	C	rs2303749	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	42	103	0	0.320611	0	T|0.949;C|0.051	0.051	strong	CDH12,right_upper_lobe,carcinoma,-2,1	CDH12	238	1	NM_004061	exon13	c.A1569G	p.Q523Q	GGAGAATTGTTGC	.	PASS	Atlas-SNP
PRDM5	11107	hgsc.bcm.edu	37	4	121706201	121706201	+	Silent	SNP	A	A	G	rs12499000	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	26	53	0	0.530612	0	A|0.807;G|0.193	0.193	strong	PRDM5,NS,carcinoma,0,1	PRDM5	76	1	NM_018699	exon11	c.T1234C	p.L412L	GGAACAAAGCTTT	.	PASS	Atlas-SNP
FUCA1	2517	hgsc.bcm.edu	37	1	24180962	24180962	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	126	191	0	0.575342	0	.	.	none	.	FUCA1	24	.	NM_000147	exon5	c.A857G	p.Q286R	AAGCTCTGTGGCT	.	PASS	Atlas-SNP
ZNF726	730087	hgsc.bcm.edu	37	19	24115369	24115369	+	Silent	SNP	T	T	C	rs56014490	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	6	18	0	0.4	0	T|0.891;C|0.109	0.109	strong	.	.	.	.	NM_001244038	exon4	c.T451C	p.L151L	AAATATTTGAAAG	.	PASS	Atlas-SNP
IGIP	492311	hgsc.bcm.edu	37	5	139508064	139508064	+	Missense_Mutation	SNP	G	G	A	rs141663065	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	31	104	0	0.397436	0	G|0.999;A|0.001	0.001	strong	.	.	.	.	NM_001007189	exon1	c.G3A	p.M1I	AAATATGTGCAGT	.	PASS	Atlas-SNP
UGT8	7368	hgsc.bcm.edu	37	4	115544713	115544713	+	Missense_Mutation	SNP	C	C	T	rs4148254	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	88	152	0	0.49162	0	C|0.963;T|0.037	0.037	strong	.	UGT8	82	.	NM_003360	exon1	c.C677T	p.P226L	TGCTGCCAGAGAA	.	PASS	Atlas-SNP
MOK	5891	hgsc.bcm.edu	37	14	102729886	102729886	+	Nonsense_Mutation	SNP	G	G	A	rs34931752	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	30	79	0	0.46875	0	G|0.950;A|0.050	0.050	strong	.	.	.	.	NM_014226	exon4	c.C280T	p.R94X	TACCTCGTATTAG	.	PASS	Atlas-SNP
OR51A2	401667	hgsc.bcm.edu	37	11	4976768	4976768	+	Missense_Mutation	SNP	C	C	T	rs1817206	bycluster;bysubmitter;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	172	623	0	0.988506	0	C|1.000;|0.000	.	weak	OR51A2,NS,carcinoma,0,1	OR51A2	40	1	NM_001004748	exon1	c.G176A	p.G59E	ATGGGCCCATGCA	.	scavenged	Atlas-SNP
TRAPPC9	83696	hgsc.bcm.edu	37	8	140998945	140998945	+	Silent	SNP	G	G	A	rs2614718	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	29	45	0	0.446154	0	G|0.921;A|0.079	0.079	strong	.	TRAPPC9	114	.	NM_031466	exon19	c.C3093T	p.G1031G	GCACTCGCCGGCG	.	PASS	Atlas-SNP
GPR183	1880	hgsc.bcm.edu	37	13	99948097	99948097	+	Silent	SNP	A	A	G	rs2230343	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	76	120	0	0.531469	0	A|0.921;G|0.079	0.079	strong	.	GPR183	38	.	NM_004951	exon2	c.T303C	p.D101D	CAAGGCATCTCCG	.	PASS	Atlas-SNP
ANK2	287	hgsc.bcm.edu	37	4	114274519	114274519	+	Missense_Mutation	SNP	G	G	A	rs138842207	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	101	195	0	0.478673	0	G|0.999;A|0.001	0.001	strong	ANK2,rectum,carcinoma,+1,1	ANK2	576	1	NM_001148	exon38	c.G4745A	p.R1582Q	GCTCTCGGTCTGA	.	PASS	Atlas-SNP
BPI	671	hgsc.bcm.edu	37	20	36932660	36932660	+	Missense_Mutation	SNP	C	C	T	rs1341023	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	94	136	0	0.979167	0	C|0.551;T|0.449	0.449	strong	.	BPI	67	.	NM_001725	exon1	c.C47T	p.A16V	GATGGGCGTCCCT	.	PASS	Atlas-SNP
USP4	7375	hgsc.bcm.edu	37	3	49362369	49362369	+	Silent	SNP	C	C	T	rs56038006	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	124	209	0	0.571429	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
NOS2	4843	hgsc.bcm.edu	37	17	26096597	26096597	+	Missense_Mutation	SNP	G	G	A	rs2297518	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	161	153	0	0.964072	0	G|0.830;A|0.170	0.170	strong	NOS2,right_upper_lobe,carcinoma,+1,1	NOS2	113	1	NM_000625	exon16	c.C1823T	p.S608L	AAGAGCGATTTCT	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911307	29911307	+	Silent	SNP	G	G	A	rs199474578	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	322	25	244	0	0.0776398	0	A|0.028;G|0.972	0.028	strong	HLA-A,NS,adenoma,+1,2	HLA-A	89	2	NM_001242758	exon3	c.G606A	p.T202T	GGAGACGCTGCAG	.	PASS	Atlas-SNP
GLDC	2731	hgsc.bcm.edu	37	9	6620216	6620216	+	Silent	SNP	C	C	T	rs13289273	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	46	190	0	0.310811	0	C|0.941;T|0.059	0.059	strong	.	GLDC	118	.	NM_000170	exon3	c.G438A	p.T146T	CAAAATCGTCTGT	.	PASS	Atlas-SNP
ARHGAP28	79822	hgsc.bcm.edu	37	18	6890434	6890434	+	Silent	SNP	A	A	G	rs1116757	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	235	129	304	0	0.548936	0	A|0.426;G|0.574	0.574	strong	.	ARHGAP28	181	.	NM_001010000	exon13	c.A1263G	p.P421P	GGTTCCATCTTTC	.	PASS	Atlas-SNP
SAMD9	54809	hgsc.bcm.edu	37	7	92733766	92733766	+	Missense_Mutation	SNP	C	C	A	rs10279499	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	69	92	0	0.518797	0	C|0.882;A|0.118	0.118	strong	.	SAMD9	239	.	NM_001193307	exon2	c.G1645T	p.V549L	CATCCACAGAGGA	.	PASS	Atlas-SNP
HOXA7	3204	hgsc.bcm.edu	37	7	27196113	27196113	+	Missense_Mutation	SNP	C	C	T	rs2301721	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	44	69	0	0.444444	0	C|0.328;T|0.672	0.672	strong	.	HOXA7	34	.	NM_006896	exon1	c.G52A	p.A18T	GAGAAGCCCCCGC	.	PASS	Atlas-SNP
CDH20	28316	hgsc.bcm.edu	37	18	59174759	59174759	+	Missense_Mutation	SNP	C	C	A	rs1943330	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	39	92	0	0.541667	0	C|0.911;A|0.089	0.089	strong	CDH20,right_upper_lobe,carcinoma,-1,1	CDH20	117	1	NM_031891	exon5	c.C983A	p.P328H	CAGATCCCAATTT	.	PASS	Atlas-SNP
BDH1	622	hgsc.bcm.edu	37	3	197241286	197241286	+	Silent	SNP	G	G	C	rs35089738	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	69	116	0	0.6	0	G|0.909;C|0.091	0.091	strong	.	BDH1	24	.	NM_004051	exon6	c.C411G	p.G137G	CCACATGCCTGGA	.	PASS	Atlas-SNP
KDM5B	10765	hgsc.bcm.edu	37	1	202710733	202710733	+	Missense_Mutation	SNP	C	C	G	rs112284833	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	100	88	0	1	0	C|0.980;G|0.020	0.020	strong	.	KDM5B	166	.	NM_006618	exon19	c.G2707C	p.E903Q	GAAGTTCAACATC	.	PASS	Atlas-SNP
IFNAR2	3455	hgsc.bcm.edu	37	21	34614255	34614255	+	Missense_Mutation	SNP	T	T	G	rs1051393	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	47	97	0	0.494737	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
DNAH5	1767	hgsc.bcm.edu	37	5	13865980	13865980	+	Silent	SNP	T	T	C	rs7703349	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	56	84	0	0.565657	0	T|0.533;C|0.467	0.467	strong	DNAH5,NS,carcinoma,0,1	DNAH5	868	1	NM_001369	exon27	c.A4152G	p.T1384T	AGTATATGTGATG	.	PASS	Atlas-SNP
CTU2	348180	hgsc.bcm.edu	37	16	88779032	88779032	+	Silent	SNP	G	G	C	rs2290896	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	72	247	0	0.45283	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
C4orf47	441054	hgsc.bcm.edu	37	4	186366181	186366181	+	Missense_Mutation	SNP	G	G	A	rs74560263	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	134	269	1	0.533865	0.00371747	G|0.938;A|0.062	0.062	strong	.	C4orf47	13	.	NM_001114357	exon6	c.G778A	p.A260T	TATGTGGCTAAAT	.	PASS	Atlas-SNP
POP1	10940	hgsc.bcm.edu	37	8	99170404	99170404	+	Missense_Mutation	SNP	C	C	G	rs17856355	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	29	35	0	0.828571	0	C|0.954;G|0.046	0.046	strong	.	POP1	85	.	NM_001145860	exon16	c.C2980G	p.L994V	GATATGCTGTCCA	.	PASS	Atlas-SNP
GTPBP5	26164	hgsc.bcm.edu	37	20	60768573	60768573	+	Missense_Mutation	SNP	C	C	T	rs41284984	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	90	163	0	0.505618	0	A|0.000;C|0.973;T|0.027	0.027	strong	.	GTPBP5	43	.	NM_015666	exon2	c.C97T	p.R33W	CCCAGCCGGCTAC	.	PASS	Atlas-SNP
AP4B1	10717	hgsc.bcm.edu	37	1	114443899	114443899	+	Silent	SNP	G	G	A	rs17464525	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	129	283	0	0.578475	0	G|0.856;A|0.144	0.144	strong	.	AP4B1	72	.	NM_006594	exon5	c.C576T	p.G192G	GACAACGCCTCCT	.	PASS	Atlas-SNP
ENO3	2027	hgsc.bcm.edu	37	17	4856376	4856376	+	Missense_Mutation	SNP	A	A	G	rs238238	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	84	140	0	0.538462	0	A|0.376;G|0.624	0.624	strong	ENO3,NS,carcinoma,0,1	ENO3	36	1	NM_001976	exon4	c.A212G	p.N71S	TCAACAATACTCT	.	PASS	Atlas-SNP
FHIT	2272	hgsc.bcm.edu	37	3	59997112	59997112	+	Silent	SNP	G	G	A	rs1130972	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	98	169	0	0.547486	0	G|0.893;A|0.107	0.107	strong	.	FHIT	44	.	NM_002012	exon7	c.C264T	p.A88A	CTGTCCGGCTTCG	.	PASS	Atlas-SNP
SEMA6D	80031	hgsc.bcm.edu	37	15	48053229	48053229	+	Silent	SNP	C	C	A	rs501916	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	86	231	0	0.419512	0	C|0.567;A|0.433	0.433	strong	.	SEMA6D	322	.	NM_153617	exon4	c.C276A	p.P92P	AATACCCAACAAG	.	PASS	Atlas-SNP
OR5F1	338674	hgsc.bcm.edu	37	11	55762060	55762060	+	Silent	SNP	T	T	C	rs71490418	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	58	72	0	0.522523	0	T|0.844;C|0.156	0.156	strong	OR5F1,rectum,carcinoma,-2,2	OR5F1	116	2	NM_003697	exon1	c.A42G	p.L14L	TCCCAATAGGACG	.	PASS	Atlas-SNP
LARS	51520	hgsc.bcm.edu	37	5	145539996	145539996	+	Silent	SNP	T	T	G	rs11540214	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	44	144	0	0.325926	0	T|0.793;G|0.207	0.207	strong	LARS,NS,carcinoma,0,2	LARS	100	2	NM_020117	exon7	c.A648C	p.S216S	GACAAATGAATCA	.	PASS	Atlas-SNP
OR2B11	127623	hgsc.bcm.edu	37	1	247615252	247615252	+	Silent	SNP	G	G	A	rs12028142	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	64	132	0	0.516129	0	G|0.898;A|0.102	0.102	strong	.	OR2B11	102	.	NM_001004492	exon1	c.C33T	p.D11D	AGGGGAGTCCCCT	.	PASS	Atlas-SNP
IFNB1	3456	hgsc.bcm.edu	37	9	21077716	21077716	+	Silent	SNP	G	G	A	rs1051922	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	46	121	0	0.38983	0	G|0.656;N|0.000	.	strong	.	IFNB1	33	.	NM_002176	exon1	c.C153T	p.Y51Y	GAGGCAGTATTCA	.	PASS	Atlas-SNP
FUT5	2527	hgsc.bcm.edu	37	19	5866724	5866724	+	Missense_Mutation	SNP	G	G	A	rs4807054	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	389	114	393	0	0.293059	0	G|0.603;A|0.397	0.397	strong	FUT5,colon,carcinoma,0,1	FUT5	29	1	NM_002034	exon2	c.C1013T	p.T338M	CGCAGCGTCTCCC	.	PASS	Atlas-SNP
OR4B1	119765	hgsc.bcm.edu	37	11	48238880	48238880	+	Silent	SNP	C	C	T	rs10838833	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	283	136	263	0	0.480565	0	C|0.829;T|0.171	0.171	strong	.	OR4B1	52	.	NM_001005470	exon1	c.C519T	p.D173D	GATTGACCACTAT	.	PASS	Atlas-SNP
ACSBG2	81616	hgsc.bcm.edu	37	19	6187657	6187657	+	Silent	SNP	C	C	T	rs16993453	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	49	108	0	0.445455	0	C|0.909;T|0.091	0.091	strong	.	ACSBG2	83	.	NM_030924	exon13	c.C1728T	p.F576F	GAACTTCGAGGCC	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8160334	8160334	+	Missense_Mutation	SNP	G	G	A	rs12608849	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	86	162	0	0.554839	0	G|0.757;A|0.243	0.243	strong	.	FBN3	300	.	NM_032447	exon45	c.C5710T	p.L1904F	TGTTGAGGCAATG	.	PASS	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	37	1	186276291	186276291	+	Silent	SNP	A	A	G	rs151267614	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	303	22	232	15	0.0726073	0.0646552	A|0.906;G|0.094	0.094	strong	PRG4,NS,carcinoma,0,1	PRG4	259	1	NM_005807	exon7	c.A1440G	p.K480K	TCCCAAAGAGCCT	.	scavenged	Atlas-SNP
UBN1	29855	hgsc.bcm.edu	37	16	4930100	4930100	+	Silent	SNP	C	C	T	rs1876359	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	81	147	0	0.50625	0	C|0.650;T|0.350	0.350	strong	.	UBN1	88	.	NM_001079514	exon18	c.C3372T	p.H1124H	GCTTCACGGGAAA	.	PASS	Atlas-SNP
FDX1L	112812	hgsc.bcm.edu	37	19	10426422	10426422	+	Silent	SNP	A	A	C	rs378395	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	15	41	1	1	0.0243902	A|0.532;C|0.468	0.468	strong	FDX1L,NS,carcinoma,0,1	FDX1L	21	1	NM_001031734	exon2	c.T159G	p.A53A	CTCTCCAGCCGGG	.	scavenged	Atlas-SNP
VPS8	23355	hgsc.bcm.edu	37	3	184700426	184700426	+	Missense_Mutation	SNP	C	C	T	rs11555405	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	288	159	221	0	0.552083	0	C|0.726;T|0.274	0.274	strong	.	VPS8	109	.	NM_001009921	exon40	c.C3493T	p.H1165Y	CATCTACACTCTG	.	PASS	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	37	9	77377410	77377410	+	Missense_Mutation	SNP	C	C	T	rs3750425	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	59	105	0	0.453846	0	C|0.855;T|0.145	0.145	strong	.	TRPM6	377	.	NM_017662	exon26	c.G4177A	p.V1393I	AGACAACTGGGGT	.	PASS	Atlas-SNP
SLC12A3	6559	hgsc.bcm.edu	37	16	56928555	56928555	+	Splice_Site	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	56	108	0	0.509091	0	.	.	none	.	SLC12A3	99	.	NM_001126108	exon22	c.2633+1G>A	.	AAAGGCGTAAGTG	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113234507	113234507	+	Missense_Mutation	SNP	T	T	C	rs10817025	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	113	197	0	0.570707	0	T|0.798;C|0.202	0.202	strong	.	SVEP1	326	.	NM_153366	exon15	c.A2696G	p.K899R	GAGGACTTGGCAT	.	PASS	Atlas-SNP
FABP1	2168	hgsc.bcm.edu	37	2	88424066	88424066	+	Missense_Mutation	SNP	T	T	C	rs2241883	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	55	122	0	0.44	0	A|0.004;C|0.254	0.254	strong	.	FABP1	23	.	NM_001443	exon3	c.A280G	p.T94A	TGAAAGTTGTCAC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	68	99	0	0.647619	0	G|0.802;A|0.198	0.198	strong	.	USP35	179	.	NM_020798	exon3	c.G706A	p.V236M	GCCAGCGTGGTCC	.	PASS	Atlas-SNP
PRRC2C	23215	hgsc.bcm.edu	37	1	171483717	171483717	+	Silent	SNP	A	A	C	rs1055417	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	203	178	0	1	0	A|0.870;C|0.130	0.130	strong	.	.	.	.	NM_015172	exon4	c.A327C	p.A109A	GGTTGCAGCTCCC	.	PASS	Atlas-SNP
HOXB7	3217	hgsc.bcm.edu	37	17	46688135	46688135	+	Missense_Mutation	SNP	G	G	A	rs79247310	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	25	33	0	0.675676	0	G|0.917;A|0.083	0.083	strong	.	HOXB7	15	.	NM_004502	exon1	c.C146T	p.A49V	AAGGAAGCGCCCG	.	PASS	Atlas-SNP
CNTRL	11064	hgsc.bcm.edu	37	9	123850770	123850770	+	Missense_Mutation	SNP	G	G	A	rs10818503	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	293	145	271	1	0.494881	0.00369004	G|0.403;A|0.597	0.597	strong	.	CNTRL	161	.	NM_007018	exon1	c.G166A	p.V56I	GAGCAAGTTGAGA	.	PASS	Atlas-SNP
BBS12	166379	hgsc.bcm.edu	37	4	123664109	123664109	+	Silent	SNP	G	G	C	rs34296401	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	50	129	0	0.381679	0	G|0.964;C|0.036	0.036	strong	.	BBS12	63	.	NM_001178007	exon3	c.G1062C	p.V354V	GCCTGTGCGAATA	.	PASS	Atlas-SNP
FCAR	2204	hgsc.bcm.edu	37	19	55401170	55401170	+	Missense_Mutation	SNP	A	A	G	rs16986050	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	10	42	0	0.357143	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
SPEG	10290	hgsc.bcm.edu	37	2	220331911	220331911	+	Missense_Mutation	SNP	G	G	A	rs34861443	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	32	78	0	0.551724	0	G|0.988;A|0.012	0.012	strong	.	SPEG	272	.	NM_005876	exon10	c.G2897A	p.R966Q	AAAGCCGGTCCCT	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128394955	128394955	+	Missense_Mutation	SNP	A	A	G	rs11686946	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	80	157	0	0.496894	0	A|0.835;G|0.165	0.165	strong	MYO7B_ENST00000428314,NS,carcinoma,0,4	MYO7B	359	4	NM_001080527	exon47	c.A6314G	p.Q2105R	ACAAGCAGCGGGG	.	PASS	Atlas-SNP
HUWE1	10075	hgsc.bcm.edu	37	X	53654402	53654402	+	Missense_Mutation	SNP	T	T	C	rs41307640	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	136	252	0	1	0	T|0.984;C|0.016	0.016	strong	.	HUWE1	724	.	NM_031407	exon17	c.A1448G	p.N483S	GTAGTATTGGGTC	.	PASS	Atlas-SNP
LRCH1	23143	hgsc.bcm.edu	37	13	47243196	47243196	+	Missense_Mutation	SNP	C	C	G	rs41284185	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	69	175	0	0.46	0	C|0.959;G|0.041	0.041	strong	.	LRCH1	104	.	NM_015116	exon3	c.C484G	p.L162V	GCCTGCCTGTGTG	.	PASS	Atlas-SNP
SH3YL1	26751	hgsc.bcm.edu	37	2	224919	224919	+	Silent	SNP	A	A	G	rs2290911	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	300	134	305	0	0.446667	0	A|0.752;G|0.248	0.248	strong	.	SH3YL1	49	.	NM_015677	exon9	c.T783C	p.S261S	TCTGTTACCTGCC	.	PASS	Atlas-SNP
ATP4A	495	hgsc.bcm.edu	37	19	36048741	36048741	+	Silent	SNP	G	G	T	rs2230181	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	48	120	0	0.676056	0	G|0.705;T|0.295	0.295	strong	.	ATP4A	123	.	NM_000704	exon11	c.C1509A	p.I503I	CGTATGGATGGAC	.	PASS	Atlas-SNP
ARHGAP12	94134	hgsc.bcm.edu	37	10	32120678	32120678	+	Silent	SNP	C	C	T	rs2808100	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	122	232	0	0.48996	0	C|0.799;T|0.201	0.201	strong	.	ARHGAP12	79	.	NM_018287	exon10	c.G1437A	p.G479G	CTTTTTCCCATTT	.	PASS	Atlas-SNP
SLC25A2	83884	hgsc.bcm.edu	37	5	140682757	140682757	+	Missense_Mutation	SNP	C	C	T	rs3749780	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	36	118	0	0.255319	0	T|0.148;C|0.852	0.148	strong	.	SLC25A2	68	.	NM_031947	exon1	c.G676A	p.V226I	ACACGACAAGCCA	.	PASS	Atlas-SNP
FAM3D	131177	hgsc.bcm.edu	37	3	58625875	58625875	+	Missense_Mutation	SNP	C	C	A	rs33966924	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	76	135	0	0.571429	0	C|0.868;A|0.132	0.132	strong	.	FAM3D	29	.	NM_138805	exon7	c.G352T	p.A118S	CAAATGCCTTCTG	.	PASS	Atlas-SNP
THBS2	7058	hgsc.bcm.edu	37	6	169637763	169637763	+	Silent	SNP	G	G	C	rs9766671	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	67	93	0	0.57265	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
PCDHA3	56145	hgsc.bcm.edu	37	5	140183058	140183058	+	Missense_Mutation	SNP	G	G	A	rs2240694	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	280	95	369	3	0.339286	0.00813008	G|0.476;A|0.524	0.524	strong	PCDHA3,NS,carcinoma,+1,1	PCDHA3	396	1	NM_031497	exon1	c.G2276A	p.C759Y	GGGTGTGCTCTGG	.	scavenged	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	215914826	215914826	+	Missense_Mutation	SNP	T	T	C	rs35309576	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	41	82	0	0.931818	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
CARD11	84433	hgsc.bcm.edu	37	7	2962293	2962293	+	Silent	SNP	C	C	G	rs3735131	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	61	67	0	0.586538	0	C|0.887;G|0.113	0.113	strong	CARD11,NS,carcinoma,-2,1	CARD11	339	1	NM_032415	exon17	c.G2244C	p.T748T	GTGCAGCGTGACG	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26868322	26868322	+	Silent	SNP	T	T	C	rs1900941	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	69	56	0	1	0	T|0.714;C|0.286	0.286	strong	ITPR2,colon,carcinoma,-2,1	ITPR2	270	1	NM_002223	exon8	c.A765G	p.E255E	CTCATATTCATCA	.	PASS	Atlas-SNP
ATP10D	57205	hgsc.bcm.edu	37	4	47538044	47538044	+	Missense_Mutation	SNP	G	G	A	rs35012290	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	97	212	0	0.47549	0	G|0.944;A|0.056	0.056	strong	.	ATP10D	168	.	NM_020453	exon7	c.G1009A	p.A337T	ACTGGCGCAGTAG	.	PASS	Atlas-SNP
DDX52	11056	hgsc.bcm.edu	37	17	35988672	35988672	+	Silent	SNP	C	C	T	rs7224513	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	82	86	0	1	0	C|0.357;T|0.643	0.643	strong	.	DDX52	40	.	NM_007010	exon6	c.G792A	p.R264R	GTGTATCCTGAAT	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42171654	42171654	+	Silent	SNP	G	G	A	rs56379301	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	22	44	0	0.415094	0	G|0.972;A|0.028	0.028	strong	.	SPTBN5	171	.	NM_016642	exon16	c.C2881T	p.L961L	GTGCCAGCTGCAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509689	195509689	+	Missense_Mutation	SNP	G	G	A	rs59620726	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	520	202	183	10	0.388462	0.0546448	G|0.997;A|0.003	0.003	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C8762T	p.A2921V	GTGGATGCTGAGG	.	scavenged	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	37	7	101848404	101848404	+	Silent	SNP	C	C	T	rs144081584	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	97	162	0	0.530055	0	C|0.989;T|0.011	0.011	strong	CUX1,caecum,carcinoma,0,2	CUX1	253	2	NM_001202543	exon20	c.C3117T	p.S1039S	CCACTCCGTGACA	.	PASS	Atlas-SNP
TNFAIP8	25816	hgsc.bcm.edu	37	5	118728953	118728953	+	Silent	SNP	G	G	C	rs3203922	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	91	169	0	0.511236	0	G|0.745;C|0.255	0.255	strong	.	TNFAIP8	12	.	NM_014350	exon2	c.G474C	p.V158V	TAATGTGTTTGAT	.	PASS	Atlas-SNP
FN1	2335	hgsc.bcm.edu	37	2	216242917	216242917	+	Silent	SNP	T	T	A	rs1132741	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	20	54	0	0.444444	0	T|0.728;A|0.272	0.272	strong	FN1,NS,carcinoma,0,1	FN1	521	1	NM_212482	exon35	c.A5691T	p.G1897G	GACAACTCCCTGA	.	PASS	Atlas-SNP
ZNF142	7701	hgsc.bcm.edu	37	2	219520895	219520895	+	Silent	SNP	T	T	C	rs3731872	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	132	254	0	0.478261	0	T|0.896;C|0.104	0.104	strong	.	ZNF142	190	.	NM_001105537	exon4	c.A258G	p.P86P	AGCACCTGGGGTC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179545859	179545859	+	Missense_Mutation	SNP	C	C	T	rs36051007	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	30	70	0	0.566038	0	C|0.821;T|0.179	0.179	strong	.	TTN	18412	.	NM_001267550	exon138	c.G33287A	p.R11096H	GAAATACGTATTT	.	PASS	Atlas-SNP
PARP10	84875	hgsc.bcm.edu	37	8	145059425	145059425	+	Missense_Mutation	SNP	T	T	C	rs11136344	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	40	67	0	0.555556	0	T|0.554;C|0.446	0.446	strong	.	PARP10	57	.	NM_032789	exon5	c.A745G	p.I249V	CCAGGATGTCGTA	.	PASS	Atlas-SNP
BAI3	577	hgsc.bcm.edu	37	6	70071173	70071173	+	Silent	SNP	G	G	A	rs913543	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	45	57	0	1	0	G|0.585;A|0.415	0.415	strong	.	BAI3	451	.	NM_001704	exon29	c.G4008A	p.P1336P	CTTGCCGCATGAA	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116339282	116339282	+	Silent	SNP	G	G	A	rs11762213	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	98	159	0	0.563218	0	G|0.974;A|0.026	0.026	strong	MET,NS,adenocarcinoma,+1,2	MET	412	2	NM_000245	exon2	c.G144A	p.A48A	CACCGCGGAAACA	.	PASS	Atlas-SNP
CMAS	55907	hgsc.bcm.edu	37	12	22213786	22213786	+	Silent	SNP	C	C	T	rs10841930	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	28	46	0	0.571429	0	C|0.831;G|0.000;T|0.169	0.169	strong	.	CMAS	45	.	NM_018686	exon5	c.C714T	p.Y238Y	ATACTACGAAATG	.	PASS	Atlas-SNP
ACTN1	87	hgsc.bcm.edu	37	14	69341653	69341653	+	Missense_Mutation	SNP	T	T	A	rs11557769	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	32	66	1	0.4	0.0151515	T|0.988;A|0.012	0.012	strong	ACTN1,NS,carcinoma,+2,1	ACTN1	77	1	NM_001130004	exon22	c.A2668T	p.T890S	GGCCGGTGTAGGG	.	scavenged	Atlas-SNP
IL32	9235	hgsc.bcm.edu	37	16	3119167	3119167	+	Silent	SNP	T	T	C	rs4786372	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	382	108	331	0	0.282723	0	T|0.235;C|0.765	0.765	strong	.	IL32	32	.	NM_004221	exon7	c.T378C	p.V126V	CGGGGTTCTGGCC	.	PASS	Atlas-SNP
EML5	161436	hgsc.bcm.edu	37	14	89205265	89205265	+	Missense_Mutation	SNP	T	T	C	rs17188228	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	50	73	0	0.543478	0	T|0.733;C|0.267	0.267	strong	.	EML5	141	.	NM_183387	exon6	c.A805G	p.I269V	CAGTAATTGGTTT	.	PASS	Atlas-SNP
FAM8A1	51439	hgsc.bcm.edu	37	6	17608511	17608511	+	Nonsense_Mutation	SNP	C	C	T	rs200041366		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	8	143	0	0.0375587	0	.	.	weak	FAM8A1,lower_third,carcinoma,-1,1	FAM8A1	26	1	NM_016255	exon5	c.C1183T	p.R395X	CATAATCGAACAG	.	scavenged	Atlas-SNP
SULT2B1	6820	hgsc.bcm.edu	37	19	49096065	49096065	+	Silent	SNP	C	C	T	rs2302948	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	21	63	0	0.466667	0	C|0.814;T|0.186	0.186	strong	.	SULT2B1	72	.	NM_177973	exon5	c.C637T	p.L213L	GAGGAGCTGCAGC	.	PASS	Atlas-SNP
TCN1	6947	hgsc.bcm.edu	37	11	59623479	59623479	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	34	144	0	0.175258	0	.	.	none	.	TCN1	64	.	NM_001062	exon6	c.A800C	p.Q267P	AGAGTTTGTTGGC	.	PASS	Atlas-SNP
PPP1R21	129285	hgsc.bcm.edu	37	2	48713777	48713777	+	Silent	SNP	C	C	T	rs33994624	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	58	151	0	0.42029	0	C|0.914;T|0.086	0.086	strong	.	PPP1R21	47	.	NM_152994	exon14	c.C1326T	p.S442S	TATTTCCAAACAT	.	PASS	Atlas-SNP
USP6	9098	hgsc.bcm.edu	37	17	5072316	5072316	+	Silent	SNP	C	C	T	rs11658877	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	288	279	245	0	0.96875	0	C|0.530;T|0.470	0.470	strong	.	USP6	213	.	NM_004505	exon27	c.C3483T	p.S1161S	CCCATCCTCACTC	.	PASS	Atlas-SNP
HAUS6	54801	hgsc.bcm.edu	37	9	19058743	19058743	+	Missense_Mutation	SNP	G	G	C	rs41319051	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	368	170	421	0	0.461957	0	G|1.000;|0.000	.	weak	.	HAUS6	66	.	NM_017645	exon16	c.C2022G	p.H674Q	ATCTATGTGACTG	.	PASS	Atlas-SNP
GAK	2580	hgsc.bcm.edu	37	4	877187	877187	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	18	72	0	0.152542	0	.	.	none	.	GAK	104	.	NM_005255	exon13	c.G1320T	p.L440F	CAGGAACAACCGC	.	PASS	Atlas-SNP
ZNF419	79744	hgsc.bcm.edu	37	19	58004346	58004346	+	Missense_Mutation	SNP	G	G	C	rs2074076	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	92	231	0	0.423963	0	G|0.324;C|0.676	0.676	strong	.	ZNF419	134	.	NM_001098491	exon5	c.G424C	p.E142Q	AGACAAGAGGGCA	.	PASS	Atlas-SNP
GSTA2	2939	hgsc.bcm.edu	37	6	52617731	52617731	+	Missense_Mutation	SNP	C	C	G	rs2180314	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	263	262	223	0	0.996198	0	C|0.477;G|0.523	0.523	strong	.	GSTA2	33	.	NM_000846	exon5	c.G335C	p.S112T	GGTTGACTAAAGG	.	PASS	Atlas-SNP
ASCL3	56676	hgsc.bcm.edu	37	11	8959545	8959545	+	Missense_Mutation	SNP	C	C	A	rs4909951	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	60	109	0	0.550459	0	C|0.449;A|0.551	0.551	strong	.	ASCL3	19	.	NM_020646	exon2	c.G164T	p.R55L	GGCAGCCGTGGCA	.	PASS	Atlas-SNP
TRAK1	22906	hgsc.bcm.edu	37	3	42251263	42251263	+	Silent	SNP	C	C	T	rs2290134	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	10	48	0	0.238095	0	C|0.503;T|0.497	0.497	strong	.	TRAK1	188	.	NM_001265608	exon14	c.C1749T	p.S583S	AGGTTCCGCCACA	.	PASS	Atlas-SNP
OR51D1	390038	hgsc.bcm.edu	37	11	4661285	4661285	+	Missense_Mutation	SNP	A	A	G	rs905871	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	283	132	268	0	0.466431	0	A|0.794;G|0.206	0.206	strong	.	OR51D1	49	.	NM_001004751	exon1	c.A265G	p.I89V	TCCTCTATCACCA	.	PASS	Atlas-SNP
UHRF1BP1L	23074	hgsc.bcm.edu	37	12	100452027	100452027	+	Missense_Mutation	SNP	T	T	C	rs60592197	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	85	124	0	0.594406	0	T|0.937;C|0.063	0.063	strong	.	UHRF1BP1L	144	.	NM_015054	exon14	c.A3028G	p.I1010V	TTAAGATACTACT	.	PASS	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248524992	248524992	+	Missense_Mutation	SNP	A	A	G	rs45552134	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	549	86	793	2	0.156648	0.00252207	A|0.973;G|0.027	0.027	strong	OR2T4,NS,carcinoma,0,1	OR2T4	126	1	NM_001004696	exon1	c.A110G	p.N37S	TGGCCAACCACAC	.	scavenged	Atlas-SNP
RRM1	6240	hgsc.bcm.edu	37	11	4159457	4159457	+	Silent	SNP	A	A	G	rs9937	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	51	91	0	0.520408	0	A|0.587;G|0.413	0.413	strong	.	RRM1	31	.	NM_001033	exon19	c.A2223G	p.T741T	AAGGACAAGACCA	.	PASS	Atlas-SNP
ANO7	50636	hgsc.bcm.edu	37	2	242141719	242141719	+	Silent	SNP	C	C	T	rs2074840	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	13	33	0	0.333333	0	C|0.452;T|0.548	0.548	strong	ANO7,NS,carcinoma,+2,1	ANO7	136	1	NM_001001891	exon8	c.C885T	p.D295D	GCATGACGTGAGC	.	PASS	Atlas-SNP
DDX1	1653	hgsc.bcm.edu	37	2	15735648	15735648	+	Silent	SNP	T	T	C	rs2302929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	60	108	0	0.451128	0	T|0.830;C|0.170	0.170	strong	.	DDX1	70	.	NM_004939	exon3	c.T103C	p.L35L	ATCCCATTGATCT	.	PASS	Atlas-SNP
APOBEC1	339	hgsc.bcm.edu	37	12	7803646	7803646	+	Silent	SNP	G	G	A	rs10431309	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	77	120	0	0.490446	0	G|0.779;A|0.221	0.221	strong	APOBEC1,caecum,carcinoma,0,2	APOBEC1	43	2	NM_001644	exon4	c.C534T	p.Y178Y	CAGTGCGTACAAC	.	PASS	Atlas-SNP
TMEM8A	58986	hgsc.bcm.edu	37	16	427479	427479	+	Missense_Mutation	SNP	T	T	C	rs11248931	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	144	0	1	0	T|0.463;C|0.537	0.537	strong	TMEM8A,colon,carcinoma,0,1	TMEM8A	49	1	NM_021259	exon3	c.A406G	p.T136A	TCGGTGTGGTGCT	.	PASS	Atlas-SNP
APOA4	337	hgsc.bcm.edu	37	11	116691634	116691634	+	Missense_Mutation	SNP	C	C	A	rs5110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	69	148	1	0.453947	0.00675676	C|0.956;A|0.044	0.044	strong	APOA4,rectum,carcinoma,0,1	APOA4	51	1	NM_000482	exon3	c.G1140T	p.Q380H	CTCCTGCTGCTGT	.	scavenged	Atlas-SNP
LRP5L	91355	hgsc.bcm.edu	37	22	25753231	25753231	+	Silent	SNP	G	G	A	rs133194	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	90	145	0	0.505618	0	G|0.556;A|0.444	0.444	strong	.	LRP5L	23	.	NM_001135772	exon4	c.C429T	p.D143D	GATCTTGTCTGTC	.	PASS	Atlas-SNP
SEC23B	10483	hgsc.bcm.edu	37	20	18523002	18523002	+	Missense_Mutation	SNP	C	C	G	rs2273526	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	63	65	0	1	0	C|0.873;G|0.127	0.127	strong	.	SEC23B	70	.	NM_032985	exon13	c.C1467G	p.H489Q	TCAGCACTCCAGC	.	PASS	Atlas-SNP
MTMR2	8898	hgsc.bcm.edu	37	11	95657111	95657111	+	Missense_Mutation	SNP	T	T	G	rs3824874	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	124	309	0	1	0	G|0.251;N|0.000	0.251	strong	.	MTMR2	79	.	NM_016156	exon1	c.A8C	p.K3T	GAGCTCTTCTCCA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	263	248	0	0.992453	0	A|0.573;G|0.426	0.426	strong	.	OR2G2	88	.	NM_001001915	exon1	c.A706G	p.R236G	GCTACCAGGAGAC	.	PASS	Atlas-SNP
TXK	7294	hgsc.bcm.edu	37	4	48115264	48115264	+	Missense_Mutation	SNP	C	C	T	rs7658300	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	117	182	0	0.536697	0	C|0.766;T|0.234	0.234	strong	.	TXK	58	.	NM_003328	exon3	c.G134A	p.R45H	CTGCGACGCTGGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	50	106	0	0.490196	0	C|0.558;T|0.442	0.442	strong	.	UAP1L1	46	.	NM_207309	exon5	c.C956T	p.A319V	TACGTGCCTCCGA	.	PASS	Atlas-SNP
ANK2	287	hgsc.bcm.edu	37	4	114257201	114257201	+	Silent	SNP	C	C	T	rs3736575	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	36	60	0	0.418605	0	C|0.741;T|0.259	0.259	strong	.	ANK2	576	.	NM_001148	exon30	c.C3579T	p.R1193R	GATCCGCGTAGGC	.	PASS	Atlas-SNP
KRT5	3852	hgsc.bcm.edu	37	12	52911401	52911401	+	Silent	SNP	T	T	G	rs4761924	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	65	121	0	0.532787	0	T|0.856;G|0.144	0.144	strong	.	KRT5	88	.	NM_000424	exon5	c.A1065C	p.T355T	GGCTTCTGTCCGG	.	PASS	Atlas-SNP
BCAM	4059	hgsc.bcm.edu	37	19	45322744	45322744	+	Missense_Mutation	SNP	A	A	G	rs1135062	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	56	119	1	0.482759	0.00840336	A|0.703;G|0.297	0.297	strong	BCAM,NS,adenoma,0,1	BCAM	53	1	NM_001013257	exon12	c.A1615G	p.T539A	TTCGGCACCGGTG	.	scavenged	Atlas-SNP
RNF123	63891	hgsc.bcm.edu	37	3	49749976	49749976	+	Missense_Mutation	SNP	G	G	A	rs34823813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	63	157	0	0.466667	0	G|0.933;A|0.067	0.067	strong	.	RNF123	100	.	NM_022064	exon27	c.G2561A	p.R854H	GTGATCGCACAGG	.	PASS	Atlas-SNP
DMKN	93099	hgsc.bcm.edu	37	19	36002389	36002389	+	Missense_Mutation	SNP	C	C	T	rs142519211		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	21	71	0	0.259259	0	.	.	weak	.	DMKN	116	.	NM_001126058	exon5	c.G842A	p.S281N	CCACTGCTGCCGC	.	PASS	Atlas-SNP
CAPZA3	93661	hgsc.bcm.edu	37	12	18891318	18891318	+	Missense_Mutation	SNP	G	G	A	rs117330813	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	77	171	1	0.425414	0.00584795	G|0.995;A|0.005	0.005	strong	CAPZA3,NS,carcinoma,0,1	CAPZA3	51	1	NM_033328	exon1	c.G116A	p.R39H	TTATCCGTGATGA	.	scavenged	Atlas-SNP
MTHFSD	64779	hgsc.bcm.edu	37	16	86585743	86585743	+	Missense_Mutation	SNP	G	G	C	rs34005514	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	61	115	0	0.504132	0	G|0.968;C|0.032	0.032	strong	.	MTHFSD	52	.	NM_001159377	exon3	c.C133G	p.L45V	AAGCCAGATAAGA	.	PASS	Atlas-SNP
ARSE	415	hgsc.bcm.edu	37	X	2852951	2852951	+	Silent	SNP	G	G	A	rs74787451		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	115	328	0	0.982906	0	.	.	weak	.	ARSE	43	.	NM_000047	exon11	c.C1692T	p.N564N	CCAGATGTTGCCC	.	PASS	Atlas-SNP
CHPT1	56994	hgsc.bcm.edu	37	12	102117589	102117589	+	Silent	SNP	C	C	T	rs11082	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	34	45	0	1	0	C|0.344;T|0.656	0.656	strong	.	CHPT1	27	.	NM_020244	exon7	c.C1029T	p.N343N	TAATAACTTTATA	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103400729	103400729	+	Missense_Mutation	SNP	G	G	A	rs12583104	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	240	101	226	0	0.420833	0	G|0.314;A|0.686	0.686	strong	.	.	.	.	NM_001146197	exon4	c.C2318T	p.P773L	CTTCCTGGGGAAA	.	PASS	Atlas-SNP
PPP2R5E	5529	hgsc.bcm.edu	37	14	63920601	63920601	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	2	74	0	0.03125	0	.	.	none	PPP2R5E,NS,carcinoma,0,1	PPP2R5E	43	1	NM_006246	exon3	c.G160A	p.V54I	ATGGAACGTCTAA	.	scavenged	Atlas-SNP
PYY	5697	hgsc.bcm.edu	37	17	42030531	42030531	+	Missense_Mutation	SNP	G	G	C	rs1058046	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	82	125	0	1	0	G|0.439;C|0.561	0.561	strong	.	PYY	11	.	NM_004160	exon6	c.C215G	p.T72R	AGAAGCGTGTCCG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	45	76	0	0.483871	0	G|0.651;N|0.000	.	strong	.	PTPN21	113	.	NM_007039	exon13	c.C1153T	p.L385F	CGTTGAGGTCAAT	.	PASS	Atlas-SNP
MAG	4099	hgsc.bcm.edu	37	19	35786868	35786868	+	Silent	SNP	C	C	T	rs2301600	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	28	57	0	0.491228	0	C|0.780;T|0.220	0.220	strong	.	MAG	172	.	NM_080600	exon4	c.C399T	p.S133S	GCACAGCGTCCTG	.	PASS	Atlas-SNP
SLC22A20	440044	hgsc.bcm.edu	37	11	64990041	64990041	+	Missense_Mutation	SNP	G	G	C	rs514076	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	84	79	0	1	0	G|0.371;C|0.629	0.629	strong	.	SLC22A20	36	.	NM_001004326	exon4	c.G737C	p.G246A	AGGAAGGAGGAAG	.	PASS	Atlas-SNP
KIR3DL3	115653	hgsc.bcm.edu	37	19	55246731	55246731	+	Missense_Mutation	SNP	C	C	A	rs77241525	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	342	159	0	0	0.464912	.	A|0.254;C|0.746	0.254	strong	KIR3DL3,NS,carcinoma,0,1	KIR3DL3	46	1	NM_153443	exon6	c.C961A	p.H321N	TCCAGACACCTGC	.	PASS	Atlas-SNP
RNF212	285498	hgsc.bcm.edu	37	4	1090625	1090625	+	Silent	SNP	G	G	A	rs4045481	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	110	115	0	1	0	G|0.444;A|0.556	0.556	strong	.	RNF212	69	.	NM_194439	exon3	c.C174T	p.T58T	TGCGTCGGTCTGA	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	37	1	43638457	43638457	+	Silent	SNP	T	T	A	rs1782387	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	52	138	0	0.530612	0	T|0.803;A|0.197	0.197	strong	.	WDR65	76	.	NM_152498	exon2	c.T33A	p.V11V	GCATGTTTTTGGT	.	PASS	Atlas-SNP
FANCI	55215	hgsc.bcm.edu	37	15	89804043	89804043	+	Missense_Mutation	SNP	C	C	T	rs17803620	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	80	143	0	0.490798	0	C|0.726;T|0.274	0.274	strong	.	FANCI	129	.	NM_001113378	exon4	c.C257T	p.A86V	AAATAGCGTCTGA	.	PASS	Atlas-SNP
DPPA4	55211	hgsc.bcm.edu	37	3	109052732	109052732	+	Missense_Mutation	SNP	T	T	C	rs3762648	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	61	123	0	0.521368	0	T|0.557;C|0.443	0.443	strong	DPPA4,NS,carcinoma,+2,1	DPPA4	56	1	NM_018189	exon2	c.A163G	p.I55V	CTTTGATAGACAT	.	PASS	Atlas-SNP
ZNF606	80095	hgsc.bcm.edu	37	19	58491382	58491382	+	Silent	SNP	G	G	A	rs142503772	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	33	73	0	0.407407	0	G|0.991;A|0.009	0.009	strong	.	ZNF606	155	.	NM_025027	exon7	c.C666T	p.N222N	GTTTAAGTTCTGG	.	PASS	Atlas-SNP
OVCH2	341277	hgsc.bcm.edu	37	11	7713176	7713176	+	Silent	SNP	G	G	A	rs74054133	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	42	75	0	0.446809	0	G|0.912;A|0.088	0.088	strong	.	OVCH2	47	.	NM_198185	exon14	c.C1464T	p.D488D	CACATAGTCGGAA	.	PASS	Atlas-SNP
RTEL1	51750	hgsc.bcm.edu	37	20	62321189	62321189	+	Silent	SNP	C	C	T	rs61753459	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	45	103	0	0.542169	0	C|0.939;G|0.000;T|0.061	0.061	strong	.	RTEL1	114	.	NM_032957	exon24	c.C2184T	p.D728D	CCAGGACTACGGA	.	PASS	Atlas-SNP
PTDSS2	81490	hgsc.bcm.edu	37	11	488609	488609	+	Silent	SNP	G	G	T	rs11539814	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	77	129	0	0.472393	0	G|0.980;T|0.020	0.020	strong	.	PTDSS2	27	.	NM_030783	exon8	c.G816T	p.T272T	GAAGACGTACAAG	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42149472	42149472	+	Missense_Mutation	SNP	T	T	C	rs1456235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	44	86	0	0.53012	0	T|0.464;C|0.536	0.536	strong	.	SPTBN5	171	.	NM_016642	exon51	c.A8480G	p.Q2827R	ACATCTTGGGCAA	.	PASS	Atlas-SNP
SERAC1	84947	hgsc.bcm.edu	37	6	158571501	158571501	+	Silent	SNP	G	G	A	rs6929274	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	100	143	0	1	0	G|0.279;A|0.721	0.721	strong	.	SERAC1	31	.	NM_032861	exon4	c.C249T	p.D83D	TCCTTTGTCTAAA	.	PASS	Atlas-SNP
NELL1	4745	hgsc.bcm.edu	37	11	20805335	20805335	+	Silent	SNP	C	C	T	rs2280363	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	35	92	0	0.376344	0	C|0.716;T|0.284	0.284	strong	NELL1,NS,carcinoma,0,1	NELL1	179	1	NM_006157	exon3	c.C294T	p.S98S	GCCATCCACTTCA	.	PASS	Atlas-SNP
KRTAP9-2	83899	hgsc.bcm.edu	37	17	39383041	39383041	+	Silent	SNP	C	C	T	rs71371479		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	8	92	0	0.0634921	0	C|0.500;T|0.500	0.500	weak	KRTAP9-2,NS,carcinoma,0,1	KRTAP9-2	24	1	NM_031961	exon1	c.C135T	p.S45S	TGTGTCCAGCTGC	.	scavenged	Atlas-SNP
DGCR6L	85359	hgsc.bcm.edu	37	22	20307256	20307256	+	Silent	SNP	G	G	A	rs7235	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	289	128	289	2	0.442907	0.00692042	G|0.703;A|0.297	0.297	strong	DGCR6L,NS,carcinoma,0,1	DGCR6L	9	1	NM_033257	exon2	c.C177T	p.T59T	GAACACGGTGCCG	.	scavenged	Atlas-SNP
KLF17	128209	hgsc.bcm.edu	37	1	44595113	44595113	+	Missense_Mutation	SNP	G	G	C	rs2429051	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	87	102	0	1	0	G|0.456;C|0.544	0.544	strong	.	KLF17	92	.	NM_173484	exon2	c.G170C	p.S57T	TACCAAGCATTCA	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10469233	10469233	+	Missense_Mutation	SNP	A	A	G	rs35602868	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	72	153	0	0.48	0	A|0.605;G|0.395	0.395	strong	.	RP1L1	453	.	NM_178857	exon4	c.T2375C	p.L792P	TCCCCCAGGCTGG	.	PASS	Atlas-SNP
NCR2	9436	hgsc.bcm.edu	37	6	41309552	41309552	+	Missense_Mutation	SNP	T	T	C	rs2236369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	81	46	0	0.987805	0	A|0.004;C|0.466	0.466	strong	NCR2,colon,carcinoma,0,1	NCR2	44	1	NM_004828	exon3	c.T415C	p.S139P	CAGACCTCCTGGA	.	PASS	Atlas-SNP
HIST1H1D	3007	hgsc.bcm.edu	37	6	26234923	26234923	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	289	57	211	0	0.197232	0	.	.	none	HIST1H1D,NS,lymphoid_neoplasm,0,1	HIST1H1D	40	1	NM_005320	exon1	c.G239T	p.R80L	TTGATACGGCTGT	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56203120	56203120	+	Silent	SNP	C	C	T	rs3809981	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	59	142	1	0.464567	0.00704225	C|0.606;T|0.394	0.394	strong	ALPK2_ENST00000361673,NS,carcinoma,-1,4	ALPK2	487	4	NM_052947	exon5	c.G4299A	p.G1433G	TTGACCCCCTTCT	.	scavenged	Atlas-SNP
GNPAT	8443	hgsc.bcm.edu	37	1	231408091	231408091	+	Missense_Mutation	SNP	A	A	G	rs11558492	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	81	191	0	0.462857	0	G|0.155;N|0.000	0.155	strong	.	GNPAT	73	.	NM_014236	exon11	c.A1556G	p.D519G	TACGTGATGTTTT	.	PASS	Atlas-SNP
PFN4	375189	hgsc.bcm.edu	37	2	24342532	24342532	+	Silent	SNP	G	G	A	rs1134516	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	11	42	0	0.458333	0	G|0.866;A|0.134	0.134	strong	.	PFN4	16	.	NM_199346	exon4	c.C276T	p.V92V	CTTCACGACAACC	.	PASS	Atlas-SNP
GPR56	9289	hgsc.bcm.edu	37	16	57689805	57689805	+	Missense_Mutation	SNP	A	A	C	rs1801255	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	39	91	0	0.52	0	A|0.834;C|0.166	0.166	strong	.	GPR56	44	.	NM_001145773	exon7	c.A933C	p.Q311H	CAGCCAAGTCCTG	.	PASS	Atlas-SNP
HRAS	3265	hgsc.bcm.edu	37	11	534242	534242	+	Silent	SNP	A	A	G	rs12628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	59	144	0	0.578431	0	A|0.663;G|0.337	0.337	strong	HRAS,arm,benign_melanocytic_nevus,0,26	HRAS	1232	26	NM_001130442	exon2	c.T81C	p.H27H	CACAAAATGGTTC	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81242151	81242151	+	Silent	SNP	T	T	C	rs5818326	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	1	54	0	0.047619	0	T|0.561;C|0.439	0.439	strong	PKD1L2_ENST00000525539,NS,carcinoma,0,4	PKD1L2	361	4	NM_001076780	exon4	c.A705G	p.G235G	CAGGTTTCCAAAG	.	scavenged	Atlas-SNP
ETV1	2115	hgsc.bcm.edu	37	7	13950864	13950864	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	14	134	0	0.121739	0	.	.	none	.	ETV1	138	.	NM_004956	exon10	c.G871A	p.G291S	ACTTAACTTCTGT	.	PASS	Atlas-SNP
CHGB	1114	hgsc.bcm.edu	37	20	5903323	5903323	+	Missense_Mutation	SNP	G	G	A	rs910122	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	65	118	0	0.457746	0	G|0.631;A|0.369	0.369	strong	CHGB,colon,carcinoma,+1,1	CHGB	112	1	NM_001819	exon4	c.G533A	p.R178Q	GGGAGCGAGGGGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	38	91	0	0.422222	0	G|0.600;C|0.400	0.400	strong	.	LUZP2	90	.	NM_001009909	exon11	c.G922C	p.E308Q	GAAACCGAGCCTA	.	PASS	Atlas-SNP
SEC16B	89866	hgsc.bcm.edu	37	1	177902725	177902725	+	Missense_Mutation	SNP	C	C	T	rs3813649	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	89	151	0	0.529762	0	C|0.799;T|0.201	0.201	strong	.	SEC16B	92	.	NM_033127	exon21	c.G2618A	p.S873N	GCTGAACTGGCGG	.	PASS	Atlas-SNP
ABCB5	340273	hgsc.bcm.edu	37	7	20762646	20762646	+	Missense_Mutation	SNP	G	G	T	rs62453384	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	38	94	0	0.535211	0	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	.	PASS	Atlas-SNP
SULT2B1	6820	hgsc.bcm.edu	37	19	49102599	49102599	+	Missense_Mutation	SNP	C	C	T	rs17842463	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	149	249	0	0.539855	0	C|0.989;T|0.011	0.011	strong	.	SULT2B1	72	.	NM_177973	exon7	c.C1034T	p.P345L	CCAGACCCAACTC	.	PASS	Atlas-SNP
NPC1	4864	hgsc.bcm.edu	37	18	21124945	21124945	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	31	172	0	0.264957	0	.	.	none	.	NPC1	114	.	NM_000271	exon12	c.G1926C	p.M642I	GCTTTTCATGTGC	.	PASS	Atlas-SNP
UGT2A1	10941	hgsc.bcm.edu	37	4	70460328	70460328	+	Missense_Mutation	SNP	C	C	T	rs4148304	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	301	153	275	0	0.508306	0	C|0.876;T|0.124	0.124	strong	UGT2A1_ENST00000457664,NS,carcinoma,0,2	UGT2A1	131	2	NM_001252274	exon6	c.G1669A	p.V557I	TGGGAACTCCCAC	.	PASS	Atlas-SNP
NUP210L	91181	hgsc.bcm.edu	37	1	154072601	154072601	+	Missense_Mutation	SNP	G	G	A	rs139838869	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	104	133	0	0.601156	0	G|0.986;A|0.014	0.014	strong	.	NUP210L	181	.	NM_001159484	exon14	c.C1838T	p.P613L	TGCATTGGTCCAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	383	203	376	1	0.530026	0.00265957	C|0.763;T|0.237	0.237	strong	.	FILIP1L	154	.	NM_182909	exon4	c.G503A	p.R168H	TGCCTACGGGATT	.	PASS	Atlas-SNP
PAQR8	85315	hgsc.bcm.edu	37	6	52268890	52268890	+	Silent	SNP	G	G	A	rs17591381	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	75	104	0	0.590551	0	G|0.883;A|0.117	0.117	strong	.	PAQR8	31	.	NM_133367	exon2	c.G879A	p.T293T	CTGTACGCTCTCC	.	PASS	Atlas-SNP
KCNH2	3757	hgsc.bcm.edu	37	7	150644428	150644428	+	Missense_Mutation	SNP	C	C	A	rs36210421	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	10	7	0	0.666667	0	C|0.983;A|0.017	0.017	strong	.	KCNH2	157	.	NM_000238	exon13	c.G3140T	p.R1047L	AGCTGGCGCTGGA	.	PASS	Atlas-SNP
OR2M2	391194	hgsc.bcm.edu	37	1	248343945	248343945	+	Missense_Mutation	SNP	C	C	G	rs4244171	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	322	320	453	0	0.993789	0	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
NUBPL	80224	hgsc.bcm.edu	37	14	32319354	32319354	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	10	137	0	0.0724638	0	.	.	none	.	NUBPL	21	.	NM_025152	exon10	c.G844T	p.E282X	ATAAGGGAAGCTT	.	PASS	Atlas-SNP
PLEKHG3	26030	hgsc.bcm.edu	37	14	65208026	65208026	+	Silent	SNP	T	T	C	rs229650	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	51	123	0	0.435897	0	T|0.756;C|0.244	0.244	strong	.	PLEKHG3	89	.	NM_015549	exon14	c.T1623C	p.S541S	ACCCTCTGTGCTG	.	PASS	Atlas-SNP
EPHA8	2046	hgsc.bcm.edu	37	1	22915753	22915753	+	Missense_Mutation	SNP	T	T	C	rs606002	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	59	61	0	1	0	T|0.543;C|0.457	0.457	strong	.	EPHA8	221	.	NM_001006943	exon5	c.T1369C	p.S457P	CCTGCCTCAGACC	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81253759	81253759	+	Missense_Mutation	SNP	A	A	G	rs9924371	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	73	151	0	0.464968	0	A|0.425;G|0.575	0.575	strong	.	PKD1L2	361	.	NM_001076780	exon1	c.T217C	p.W73R	GAAACCACTGGGT	.	PASS	Atlas-SNP
LRP6	4040	hgsc.bcm.edu	37	12	12334006	12334006	+	Silent	SNP	G	G	C	rs10082834	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	38	80	0	0.404255	0	G|0.935;C|0.065	0.065	strong	.	LRP6	170	.	NM_002336	exon6	c.C1344G	p.P448P	AGCCCGGGGTTCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	24	63	0	0.272727	0	T|0.719;C|0.281	0.281	strong	.	ZBBX	299	.	NM_024687	exon10	c.A533G	p.K178R	TGAGATTTTGCCT	.	PASS	Atlas-SNP
PLA2G12A	81579	hgsc.bcm.edu	37	4	110638810	110638810	+	Silent	SNP	C	C	T	rs2285714	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	90	211	0	0.418605	0	C|0.718;T|0.282	0.282	strong	.	PLA2G12A	11	.	NM_030821	exon3	c.G345A	p.E115E	ACAGGTCTCATAG	.	PASS	Atlas-SNP
DSEL	92126	hgsc.bcm.edu	37	18	65179829	65179829	+	Missense_Mutation	SNP	G	G	A	rs2279269	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	137	198	0	0.992754	0	G|0.545;A|0.455	0.455	strong	.	DSEL	196	.	NM_032160	exon2	c.C2047T	p.P683S	TTGTGGGTTCCAT	.	PASS	Atlas-SNP
RBM6	10180	hgsc.bcm.edu	37	3	50103917	50103917	+	Silent	SNP	G	G	A	rs2023953	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	12	29	0	0.342857	0	G|0.907;N|0.000	.	strong	.	RBM6	85	.	NM_005777	exon17	c.G2925A	p.Q975Q	CCAGCAGCTGTCA	.	PASS	Atlas-SNP
DDX11	1663	hgsc.bcm.edu	37	12	31244716	31244716	+	Silent	SNP	C	C	T	rs77924271	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	640	202	624	0	0.315625	0	T|1.000;|0.000	1.000	weak	.	DDX11	188	.	NM_030653	exon10	c.C1153T	p.L385L	ATCCGGCTGCAGG	.	PASS	Atlas-SNP
EPB41L4A	64097	hgsc.bcm.edu	37	5	111545670	111545670	+	Missense_Mutation	SNP	C	C	G	rs890757	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	76	150	0	0.424581	0	C|0.252;G|0.748	0.748	strong	.	EPB41L4A	130	.	NM_022140	exon13	c.G1097C	p.S366T	CTGATGCTGTTTG	.	PASS	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	37	6	17764530	17764530	+	Silent	SNP	C	C	T	rs9371018	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	77	147	0	0.432584	0	C|0.684;T|0.316	0.316	strong	.	KIF13A	276	.	NM_022113	exon39	c.G5229A	p.E1743E	TTTTCCCTCTGAC	.	PASS	Atlas-SNP
TLK2	11011	hgsc.bcm.edu	37	17	60637441	60637441	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	580	7	545	3	0.012069	0.00550459	.	.	none	TLK2_ENST00000346027,NS,carcinoma,0,31	TLK2	223	31	NM_006852	exon10	c.G785A	p.R262Q	AGGAACGATTAAA	.	scavenged	Atlas-SNP
OSGIN1	29948	hgsc.bcm.edu	37	16	83999548	83999548	+	Missense_Mutation	SNP	T	T	C	rs62640905	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	20	69	0	0.350877	0	T|0.985;C|0.015	0.015	strong	.	OSGIN1	33	.	NM_182981	exon6	c.T1370C	p.V457A	GGTTTGTGCAGGG	.	PASS	Atlas-SNP
SEZ6	124925	hgsc.bcm.edu	37	17	27286750	27286750	+	Silent	SNP	G	G	A	rs9907950	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	20	57	1	0.47619	0.0175439	G|0.841;A|0.159	0.159	strong	SEZ6,NS,lymphoid_neoplasm,-2,1	SEZ6	61	1	NM_001098635	exon8	c.C1737T	p.D579D	CTGGGGGTCGTGG	.	scavenged	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	37	2	15615910	15615910	+	Silent	SNP	A	A	G	rs1990754	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	259	127	206	0	0.490348	0	A|0.445;G|0.555	0.555	strong	NBAS,NS,carcinoma,0,2	NBAS	246	2	NM_015909	exon14	c.T1242C	p.S414S	TTTCACAGATGAA	.	PASS	Atlas-SNP
NKX2-3	159296	hgsc.bcm.edu	37	10	101293035	101293035	+	Silent	SNP	C	C	A	rs41290504	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	56	109	0	0.466667	0	C|0.494;A|0.506	0.506	strong	NKX2-3,NS,carcinoma,0,1	NKX2-3	11	1	NM_145285	exon1	c.C147A	p.A49A	GGCCGCCGCTGAG	.	PASS	Atlas-SNP
KRTAP5-1	387264	hgsc.bcm.edu	37	11	1605992	1605992	+	Missense_Mutation	SNP	G	G	C	rs60899198	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	259	20	248	12	0.0772201	0.0483871	G|0.500;C|0.500	0.500	weak	KRTAP5-1,NS,carcinoma,0,1	KRTAP5-1	74	1	NM_001005922	exon1	c.C488G	p.S163C	CCCTTGGAGCACC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195510194	195510194	+	Missense_Mutation	SNP	G	G	C	rs200763896	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	28	129	2	0.151351	0.0155039	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C8257G	p.L2753V	CAGGAAGAGGGGT	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506315	195506315	+	Missense_Mutation	SNP	T	T	C	rs62282465	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	31	259	4	0.303922	0.015444	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.A12136G	p.T4046A	GGGTGGTGTCACC	.	scavenged	Atlas-SNP
P2RY8	286530	hgsc.bcm.edu	37	X	1585079	1585079	+	Missense_Mutation	SNP	C	C	T	rs28578016	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	71	143	0	0.47973	0	C|0.801;T|0.199	0.199	strong	.	P2RY8	53	.	NM_178129	exon2	c.G373A	p.V125I	ACAGGACCCCCAG	.	PASS	Atlas-SNP
ZSCAN4	201516	hgsc.bcm.edu	37	19	58189287	58189287	+	Silent	SNP	C	C	T	rs9676604	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	72	105	0	0.549618	0	C|0.827;T|0.173	0.173	strong	ZSCAN4,NS,carcinoma,0,1	ZSCAN4	72	1	NM_152677	exon4	c.C402T	p.H134H	GGTCCACGTCCAC	.	PASS	Atlas-SNP
OLAH	55301	hgsc.bcm.edu	37	10	15106441	15106441	+	Silent	SNP	A	A	G	rs10906818	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	125	130	0	1	0	A|0.563;G|0.437	0.437	strong	.	OLAH	45	.	NM_018324	exon6	c.A501G	p.L167L	AGGTCTAAAAGAA	.	PASS	Atlas-SNP
CLEC4M	10332	hgsc.bcm.edu	37	19	7828277	7828277	+	Splice_Site	SNP	A	A	G	rs62623420	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	69	124	0	0.514925	0	A|0.997;G|0.003	0.003	strong	.	CLEC4M	58	.	NM_001144907	exon2	c.47-2A>G	.	CAATTCAGAAGAA	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	708275	708275	+	Missense_Mutation	SNP	C	C	A	rs45613635	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	50	152	0	0.471698	0	C|0.694;A|0.306	0.306	strong	.	WDR90	107	.	NM_145294	exon22	c.C2697A	p.H899Q	GGGCCACCTGCTG	.	PASS	Atlas-SNP
CDHR5	53841	hgsc.bcm.edu	37	11	618998	618998	+	Missense_Mutation	SNP	G	G	A	rs2740375	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	77	143	0	0.516779	0	G|0.538;A|0.462	0.462	strong	CDHR5,NS,carcinoma,+2,1	CDHR5	77	1	NM_021924	exon13	c.C1561T	p.P521S	CCGGGGGCCCCCC	.	PASS	Atlas-SNP
PPP2R3A	5523	hgsc.bcm.edu	37	3	135722264	135722264	+	Missense_Mutation	SNP	A	A	G	rs17197552	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	105	178	0	0.504808	0	A|0.779;G|0.221	0.221	strong	.	PPP2R3A	114	.	NM_002718	exon2	c.A1924G	p.S642G	TGTAGAAGTCCTG	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121653177	121653177	+	Silent	SNP	A	A	G	rs61732006	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	92	197	0	0.469388	0	A|0.902;G|0.098	0.098	strong	.	PTPRZ1	605	.	NM_002851	exon12	c.A4077G	p.T1359T	TGATACATTTGTA	.	PASS	Atlas-SNP
DEFB127	140850	hgsc.bcm.edu	37	20	139456	139456	+	Missense_Mutation	SNP	G	G	A	rs12624954	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	99	192	0	0.495	0	G|0.719;A|0.281	0.281	strong	DEFB127,NS,carcinoma,-1,1	DEFB127	15	1	NM_139074	exon2	c.G91A	p.G31R	GTACAAGGACATT	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152193286	152193286	+	Missense_Mutation	SNP	G	G	T	rs7545406	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	183	151	1	1	0.00662252	G|0.544;T|0.456	0.456	strong	HRNR,NS,carcinoma,0,1	HRNR	403	1	NM_001009931	exon3	c.C819A	p.H273Q	AGATCTGTGTCGT	.	PASS	Atlas-SNP
SLC11A1	6556	hgsc.bcm.edu	37	2	219249013	219249013	+	Silent	SNP	C	C	T	rs2276631	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	98	88	0	0.98	0	C|0.789;T|0.211	0.211	strong	.	SLC11A1	41	.	NM_000578	exon3	c.C198T	p.F66F	TGGCTTCCTCATG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	92	173	0	0.453202	0	G|0.460;C|0.540	0.540	strong	.	DGKG	98	.	NM_001346	exon6	c.C425G	p.T142S	AGGGGGGTCGCAG	.	PASS	Atlas-SNP
HEG1	57493	hgsc.bcm.edu	37	3	124728626	124728626	+	Missense_Mutation	SNP	A	A	G	rs6438869	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	44	113	0	0.463158	0	A|0.361;G|0.638	0.638	strong	.	HEG1	109	.	NM_020733	exon8	c.T3116C	p.M1039T	TTGCACATGGCTG	.	PASS	Atlas-SNP
HSD17B13	345275	hgsc.bcm.edu	37	4	88231429	88231429	+	Missense_Mutation	SNP	G	G	A	rs62305723	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	246	108	261	0	0.439024	0	G|0.956;A|0.044	0.044	strong	.	HSD17B13	27	.	NM_178135	exon6	c.C778T	p.P260S	ACGATGGAACAAA	.	PASS	Atlas-SNP
MAPK15	225689	hgsc.bcm.edu	37	8	144803785	144803785	+	Missense_Mutation	SNP	T	T	C	rs35986760	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	118	242	0	0.487603	0	T|0.977;C|0.023	0.023	strong	MAPK15,NS,carcinoma,0,1	MAPK15	32	1	NM_139021	exon12	c.T1271C	p.L424P	CTCTCCTAGGGAA	.	PASS	Atlas-SNP
NUSAP1	51203	hgsc.bcm.edu	37	15	41634588	41634588	+	Missense_Mutation	SNP	C	C	A	rs7178777	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	58	133	0	0.426471	0	C|0.686;A|0.314	0.314	strong	NUSAP1,NS,carcinoma,+1,2	NUSAP1	32	2	NM_018454	exon2	c.C98A	p.T33N	AGGCAACCAAGTT	.	PASS	Atlas-SNP
FAM179A	165186	hgsc.bcm.edu	37	2	29240060	29240060	+	Missense_Mutation	SNP	A	A	G	rs11127202	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	367	178	349	1	0.485014	0.00286533	A|0.778;G|0.222	0.222	strong	.	FAM179A	106	.	NM_199280	exon9	c.A1085G	p.Q362R	AGATGCAGCTGAA	.	PASS	Atlas-SNP
TIMELESS	8914	hgsc.bcm.edu	37	12	56822378	56822378	+	Missense_Mutation	SNP	T	T	A	rs774027	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	71	113	0	0.507143	0	T|0.566;A|0.434	0.434	strong	.	TIMELESS	107	.	NM_003920	exon12	c.A1363T	p.I455L	GAGATATGTCCAT	.	PASS	Atlas-SNP
CYB5R4	51167	hgsc.bcm.edu	37	6	84618792	84618792	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	29	67	0	0.467742	0	.	.	none	.	CYB5R4	72	.	NM_016230	exon4	c.A395G	p.K132R	CCATTAAACCTGC	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50546666	50546666	+	Missense_Mutation	SNP	C	C	T	rs3810971	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	83	148	0	0.643411	0	C|0.782;T|0.218	0.218	strong	.	MOV10L1	238	.	NM_018995	exon4	c.C544T	p.R182C	TACAAGCGCGTGG	.	PASS	Atlas-SNP
DSG2	1829	hgsc.bcm.edu	37	18	29104714	29104714	+	Missense_Mutation	SNP	A	A	G	rs2230234	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	62	134	0	0.424658	0	A|0.952;G|0.048	0.048	strong	.	DSG2	115	.	NM_001943	exon8	c.A877G	p.I293V	ACGCGCATAAAAG	.	PASS	Atlas-SNP
LRBA	987	hgsc.bcm.edu	37	4	151207127	151207127	+	Missense_Mutation	SNP	C	C	T	rs3749574	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	104	255	0	0.435146	0	C|0.798;T|0.202	0.202	strong	.	LRBA	253	.	NM_006726	exon55	c.G8110A	p.A2704T	ACACCGCAGCACA	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28419695	28419695	+	Silent	SNP	T	T	C	rs149592795	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	747	153	797	6	0.204819	0.00752823	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	.	scavenged	Atlas-SNP
VEZF1	7716	hgsc.bcm.edu	37	17	56060215	56060215	+	Silent	SNP	T	T	C	rs2228270	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	287	145	257	1	0.505226	0.00389105	T|0.916;C|0.084	0.084	strong	.	VEZF1	50	.	NM_007146	exon2	c.A573G	p.R191R	CTTGTGTCGATTG	.	PASS	Atlas-SNP
CST2	1470	hgsc.bcm.edu	37	20	23805952	23805952	+	Silent	SNP	G	G	C	rs146039211	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	6	145	3	0.0375	0.0206897	G|0.999;A|0.001	.	alt	CST2,NS,adenoma,-1,1	CST2	39	1	NM_001322	exon2	c.C237G	p.G79G	CACCCCGCCCACG	.	scavenged	Atlas-SNP
CENPM	79019	hgsc.bcm.edu	37	22	42342462	42342462	+	Silent	SNP	C	C	T	rs34730141	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	288	152	230	0	0.527778	0	C|0.983;T|0.017	0.017	strong	.	CENPM	8	.	NM_024053	exon2	c.G96A	p.A32A	CGAGTCCGCCAGC	.	PASS	Atlas-SNP
REST	5978	hgsc.bcm.edu	37	4	57798174	57798174	+	Silent	SNP	C	C	G	rs3796528	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	75	131	0	0.436047	0	C|0.914;G|0.086	0.086	strong	REST,NS,carcinoma,0,1	REST	104	1	NM_001193508	exon4	c.C3150G	p.A1050A	GGAAGCCTTGGCA	.	PASS	Atlas-SNP
CCND3	896	hgsc.bcm.edu	37	6	41903783	41903783	+	Silent	SNP	G	G	A	rs3218102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	81	128	0	0.50625	0	G|0.956;A|0.044	0.044	strong	.	CCND3	40	.	NM_001760	exon5	c.C774T	p.A258A	CTGAGAGGCTTCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	200	187	0	0.995025	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
ZNF573	126231	hgsc.bcm.edu	37	19	38230720	38230720	+	Missense_Mutation	SNP	C	C	G	rs3752365	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	47	84	0	0.456311	0	C|0.852;G|0.148	0.148	strong	.	ZNF573	63	.	NM_001172690	exon5	c.G671C	p.G224A	GCCTTCCCACACT	.	PASS	Atlas-SNP
SIPA1L1	26037	hgsc.bcm.edu	37	14	72169130	72169130	+	Missense_Mutation	SNP	T	T	C	rs79937396	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	98	184	0	0.505155	0	T|0.974;C|0.026	0.026	strong	SIPA1L1,NS,carcinoma,-1,1	SIPA1L1	219	1	NM_015556	exon12	c.T3554C	p.I1185T	CCTCCATTGACAG	.	PASS	Atlas-SNP
CAPG	822	hgsc.bcm.edu	37	2	85622059	85622059	+	Missense_Mutation	SNP	T	T	C	rs6886	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	209	230	0	0.990521	0	T|0.353;C|0.647	0.647	strong	.	CAPG	32	.	NM_001256139	exon10	c.A1004G	p.H335R	CTCTCATGGCCCT	.	PASS	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	37	9	113261483	113261483	+	Missense_Mutation	SNP	C	C	T	rs872665	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	164	153	0	0.987952	0	C|0.731;T|0.269	0.269	strong	.	SVEP1	326	.	NM_153366	exon7	c.G1519A	p.V507I	TGATGACATCTTT	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1055191	1055191	+	Missense_Mutation	SNP	G	G	A	rs3745842	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	22	35	0	0.564103	0	G|0.594;A|0.406	0.406	strong	.	ABCA7	174	.	NM_019112	exon30	c.G4046A	p.R1349Q	GTAGCCGGCCCGG	.	PASS	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	37	12	124298030	124298030	+	Missense_Mutation	SNP	G	G	A	rs143713799	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	65	103	0	0.485075	0	G|0.987;A|0.013	0.013	strong	DNAH10_ENST00000409039,colon,carcinoma,+1,7	DNAH10	888	7	NM_207437	exon19	c.G3110A	p.R1037H	TTATGCGCCACCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	40	91	0	0.412371	0	C|0.896;G|0.104	0.104	strong	.	RNF175	40	.	NM_173662	exon9	c.G921C	p.L307F	GGCCACCAAATAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508523	195508523	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	30	101	2	0.275229	0.019802	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G9928A	p.A3310T	GAGTGGCGTGACC	.	scavenged	Atlas-SNP
TEX13A	56157	hgsc.bcm.edu	37	X	104464360	104464360	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	8	60	0	0.210526	0	.	.	none	.	TEX13A	55	.	NM_031274	exon3	c.C518T	p.A173V	TCAGCTGCTCCTT	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32025980	32025980	+	Silent	SNP	G	G	A	rs12196385	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	251	123	217	0	0.49004	0	G|0.900;A|0.100	0.100	strong	.	TNXB	553	.	NM_019105	exon22	c.C7680T	p.D2560D	CCGCCCGTCCCTG	.	PASS	Atlas-SNP
PRKG1	5592	hgsc.bcm.edu	37	10	52751177	52751177	+	Missense_Mutation	SNP	G	G	A	rs202017913	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	43	115	0	0.40566	0	.	.	weak	.	PRKG1	167	.	NM_001098512	exon1	c.G39A	p.M13I	TCTCATGCTCAAG	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957245	111957245	+	Silent	SNP	G	G	A	rs9629	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	141	184	0	0.992958	0	G|0.784;A|0.216	0.216	strong	.	OVGP1	177	.	NM_002557	exon11	c.C1878T	p.P626P	GATGACGGGGCTG	.	PASS	Atlas-SNP
OR5L1	219437	hgsc.bcm.edu	37	11	55579643	55579643	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	2	137	0	0.0120482	0	.	.	none	OR5L1,NS,carcinoma,0,1	OR5L1	145	1	NM_001004738	exon1	c.G701T	p.R234M	AGGGCAGGCACAA	.	scavenged	Atlas-SNP
RNF126	55658	hgsc.bcm.edu	37	19	648173	648173	+	Silent	SNP	G	G	C	rs2072104	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	77	110	0	0.616	0	G|0.964;C|0.036	0.036	strong	.	RNF126	15	.	NM_194460	exon9	c.C891G	p.S297S	GGAGGAGGACGAT	.	PASS	Atlas-SNP
MCCC1	56922	hgsc.bcm.edu	37	3	182755209	182755209	+	Missense_Mutation	SNP	T	T	G	rs2270968	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	162	135	0	1	0	T|0.479;G|0.521	0.521	strong	.	MCCC1	87	.	NM_020166	exon13	c.A1391C	p.H464P	TTGGTGTGCAGTC	.	PASS	Atlas-SNP
SERPINF2	5345	hgsc.bcm.edu	37	17	1648294	1648294	+	Missense_Mutation	SNP	C	C	T	rs2070862	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	53	109	0	0.53	0	C|0.780;T|0.220	0.220	strong	SERPINF2,NS,carcinoma,-1,1	SERPINF2	33	1	NM_000934	exon2	c.C5T	p.A2V	ACATGGCGCTGCT	.	PASS	Atlas-SNP
NALCN	259232	hgsc.bcm.edu	37	13	101735211	101735211	+	Silent	SNP	G	G	A	rs17677552	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	44	98	0	0.435644	0	G|0.699;A|0.301	0.301	strong	.	NALCN	431	.	NM_052867	exon33	c.C3714T	p.T1238T	AGGTACGGTCACC	.	PASS	Atlas-SNP
LARS	51520	hgsc.bcm.edu	37	5	145508637	145508637	+	Silent	SNP	A	A	C	rs61732382	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	26	92	0	0.313253	0	A|0.808;C|0.192	0.192	strong	LARS,NS,carcinoma,0,1	LARS	100	1	NM_020117	exon26	c.T2673G	p.V891V	TTCATTAACAGGA	.	PASS	Atlas-SNP
PATE4	399968	hgsc.bcm.edu	37	11	125707761	125707761	+	Splice_Site	SNP	A	A	C	rs11220236	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	69	147	0	0.472603	0	A|0.479;C|0.521	0.521	strong	.	PATE4	10	.	NM_001144874	exon2	c.59-2A>C	.	CCCTGCAGTTATG	.	PASS	Atlas-SNP
FILIP1	27145	hgsc.bcm.edu	37	6	76018475	76018475	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	3	195	0	0.0138249	0	.	.	none	FILIP1,colon,carcinoma,+2,1	FILIP1	173	1	NM_015687	exon6	c.T3574C	p.S1192P	TCATAGACTGAGT	.	scavenged	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51875250	51875250	+	Missense_Mutation	SNP	A	A	C	rs2435322	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	182	146	0	1	0	A|0.049;C|0.951	0.951	strong	PKHD1,NS,carcinoma,+2,1	PKHD1	927	1	NM_170724	exon35	c.T5608G	p.L1870V	TTTCCAATTTAGG	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15820863	15820863	+	Missense_Mutation	SNP	C	C	T	rs16967494	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	46	111	0	0.484211	0	C|0.787;N|0.000	.	strong	.	MYH11	520	.	NM_001040114	exon29	c.G3721A	p.A1241T	GGTCTGCGTTCTC	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27687965	27687965	+	Missense_Mutation	SNP	A	A	G	rs2505327	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	69	160	0	0.472603	0	A|0.411;G|0.589	0.589	strong	.	PTCHD3	140	.	NM_001034842	exon4	c.T1562C	p.M521T	AGGGTCATTCCTG	.	PASS	Atlas-SNP
SMYD3	64754	hgsc.bcm.edu	37	1	246670481	246670481	+	Missense_Mutation	SNP	C	C	G	rs7520453	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	129	129	0	0.992308	0	C|0.219;G|0.781	0.781	strong	.	SMYD3	77	.	NM_001167740	exon1	c.G39C	p.K13N	TCCCCTCTTGGCG	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17085780	17085780	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	21	161	0	0.12963	0	.	.	none	Q13209_HUMAN,NS,carcinoma,0,6	.	.	6	NM_001271733	exon8	c.C1041T	p.D347D	CACGTCGTCTGTA	.	scavenged	Atlas-SNP
RNF166	115992	hgsc.bcm.edu	37	16	88767769	88767769	+	Silent	SNP	G	G	C	rs2306049	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	44	103	0	0.407407	0	G|0.537;C|0.463	0.463	strong	.	RNF166	3	.	NM_178841	exon2	c.C213G	p.L71L	GCGGCAGAGTGGG	.	PASS	Atlas-SNP
SH2D1B	117157	hgsc.bcm.edu	37	1	162367071	162367071	+	Silent	SNP	C	C	T	rs17852003	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	67	114	0	0.523438	0	C|0.671;T|0.329	0.329	strong	.	SH2D1B	19	.	NM_053282	exon4	c.G398A	p.X133X	TATCTTCAAGGCA	.	PASS	Atlas-SNP
DNAH12	201625	hgsc.bcm.edu	37	3	57414097	57414097	+	Missense_Mutation	SNP	T	T	A	rs17793014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	35	42	0	0.59322	0	T|0.739;A|0.261	0.261	strong	.	DNAH12	182	.	NM_178504	exon35	c.A5262T	p.K1754N	CACATATTTAAAA	.	PASS	Atlas-SNP
C6orf195	154386	hgsc.bcm.edu	37	6	2623960	2623960	+	Missense_Mutation	SNP	T	T	C	rs201134793	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	29	77	0	0.402778	0	T|0.999;C|0.001	0.001	strong	.	C6orf195	10	.	NM_152554	exon3	c.A97G	p.M33V	GCTCCATGCCATC	.	PASS	Atlas-SNP
LONRF2	164832	hgsc.bcm.edu	37	2	100917109	100917109	+	Silent	SNP	C	C	T	rs13006224	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	41	94	0	0.476744	0	C|0.610;T|0.390	0.390	strong	.	LONRF2	62	.	NM_198461	exon4	c.G1062A	p.S354S	TACCTCCGAGCTC	.	PASS	Atlas-SNP
SLC15A4	121260	hgsc.bcm.edu	37	12	129293346	129293346	+	Silent	SNP	C	C	T	rs11059924	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	52	83	0	0.5	0	C|0.525;T|0.475	0.475	strong	.	SLC15A4	41	.	NM_145648	exon5	c.G1245A	p.S415S	AAAGGCCGAGCAC	.	PASS	Atlas-SNP
CCDC129	223075	hgsc.bcm.edu	37	7	31594508	31594508	+	Silent	SNP	C	C	T	rs2286711	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	65	137	0	0.481481	0	C|0.772;T|0.228	0.228	strong	.	CCDC129	127	.	NM_001257968	exon4	c.C327T	p.D109D	CATTGACCGCACT	.	PASS	Atlas-SNP
STX1B	112755	hgsc.bcm.edu	37	16	31004169	31004169	+	Silent	SNP	T	T	C	rs17855121	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	95	215	0	0.439815	0	T|0.788;C|0.212	0.212	strong	.	STX1B	26	.	NM_052874	exon10	c.A840G	p.S280S	AATGGATGACGCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513758	195513758	+	Missense_Mutation	SNP	G	G	C	rs202045385		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	324	31	241	4	0.095679	0.0165975	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C4693G	p.H1565D	TGGTGTGACCTGT	.	scavenged	Atlas-SNP
PVRIG	79037	hgsc.bcm.edu	37	7	99817585	99817585	+	Nonsense_Mutation	SNP	G	G	T	rs7786505	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	315	155	339	0	0.492063	0	G|0.814;T|0.186	0.186	strong	.	PVRIG	20	.	NM_024070	exon2	c.G52T	p.E18X	GGACTGGAGGGGG	.	PASS	Atlas-SNP
OR5A1	219982	hgsc.bcm.edu	37	11	59211421	59211421	+	Silent	SNP	C	C	T	rs17591107	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	358	175	313	2	0.488827	0.00638978	C|0.815;T|0.185	0.185	strong	OR5A1,NS,adenoma,0,1	OR5A1	72	1	NM_001004728	exon1	c.C780T	p.F260F	CCTTTTCGTGTAC	.	scavenged	Atlas-SNP
DBT	1629	hgsc.bcm.edu	37	1	100672060	100672060	+	Missense_Mutation	SNP	T	T	C	rs12021720	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	78	112	1	0.987342	0.00892857	T|0.126;C|0.874	0.874	strong	.	DBT	39	.	NM_001918	exon9	c.A1150G	p.S384G	GCTGACTCACAGA	.	PASS	Atlas-SNP
SLC17A2	10246	hgsc.bcm.edu	37	6	25914853	25914853	+	Missense_Mutation	SNP	G	G	A	rs34525648	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	186	136	0	1	0	G|0.895;A|0.105	0.105	strong	.	SLC17A2	70	.	NM_005835	exon10	c.C1109T	p.S370L	TCCTGCGATGAGC	.	PASS	Atlas-SNP
SLC26A10	65012	hgsc.bcm.edu	37	12	58014864	58014864	+	Missense_Mutation	SNP	G	G	C	rs190472657	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	61	110	0	0.472868	0	G|0.999;C|0.001	0.001	strong	.	SLC26A10	89	.	NM_133489	exon2	c.G379C	p.G127R	GGGAGCGGGGCGT	.	PASS	Atlas-SNP
MFSD9	84804	hgsc.bcm.edu	37	2	103335512	103335512	+	Silent	SNP	G	G	C	rs33988363	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	53	102	0	0.434426	0	G|0.985;C|0.015	0.015	strong	.	MFSD9	56	.	NM_032718	exon6	c.C792G	p.A264A	GGGCTGGGCAGTC	.	PASS	Atlas-SNP
SLC25A23	79085	hgsc.bcm.edu	37	19	6458240	6458240	+	Silent	SNP	G	G	C	rs2289784	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	16	37	0	0.421053	0	G|0.946;C|0.054	0.054	strong	SLC25A23,NS,carcinoma,0,1	SLC25A23	43	1	NM_024103	exon2	c.C252G	p.L84L	AAACATGAGCAGC	.	PASS	Atlas-SNP
NAT2	10	hgsc.bcm.edu	37	8	18257795	18257795	+	Silent	SNP	C	C	T	rs1041983	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	53	146	0	0.424	0	C|0.637;T|0.363	0.363	strong	.	NAT2	34	.	NM_000015	exon2	c.C282T	p.Y94Y	TTTTTACATCCCT	.	PASS	Atlas-SNP
SP110	3431	hgsc.bcm.edu	37	2	231042276	231042276	+	Missense_Mutation	SNP	A	A	G	rs1135791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	340	151	387	0	0.444118	0	A|0.640;G|0.360	0.360	strong	.	SP110	105	.	NM_001185015	exon15	c.T1586C	p.M529T	AGGGTCATTCCTT	.	PASS	Atlas-SNP
TCTE1	202500	hgsc.bcm.edu	37	6	44253765	44253765	+	Missense_Mutation	SNP	A	A	G	rs2297336	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	38	101	0	0.351852	0	A|0.842;G|0.158	0.158	strong	.	TCTE1	77	.	NM_182539	exon3	c.T782C	p.F261S	AAGAGGAAGAGAT	.	PASS	Atlas-SNP
AQP4	361	hgsc.bcm.edu	37	18	24441215	24441215	+	Silent	SNP	C	C	T	rs1839318	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	42	174	0	0.320611	0	C|0.977;T|0.023	0.023	strong	.	AQP4	27	.	NM_001650	exon3	c.G492A	p.L164L	GATTATCAACTCA	.	PASS	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	37	7	82435033	82435033	+	Silent	SNP	C	C	T	rs12668093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	81	165	0	0.496933	0	C|0.773;T|0.227	0.227	strong	.	PCLO	1506	.	NM_033026	exon21	c.G14904A	p.G4968G	AGTCTCCCCTGCA	.	PASS	Atlas-SNP
CTAGE9	643854	hgsc.bcm.edu	37	6	132030966	132030966	+	Missense_Mutation	SNP	G	G	C	rs4897534		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	588	156	575	0	0.265306	0	.	.	weak	.	CTAGE9	56	.	NM_001145659	exon1	c.C1192G	p.L398V	TGTAGAGTTTCAT	.	PASS	Atlas-SNP
KRT76	51350	hgsc.bcm.edu	37	12	53162528	53162528	+	Missense_Mutation	SNP	G	G	A	rs2280480	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	73	122	0	0.503448	0	G|0.811;A|0.189	0.189	strong	.	KRT76	72	.	NM_015848	exon9	c.C1886T	p.T629M	GAGCTCGTGGTCT	.	PASS	Atlas-SNP
ERCC6L2	375748	hgsc.bcm.edu	37	9	98691137	98691137	+	Missense_Mutation	SNP	T	T	C	rs2274654	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	16	41	0	0.484848	0	T|0.816;C|0.184	0.184	strong	.	.	.	.	NM_001010895	exon11	c.T1775C	p.V592A	GCCTTGTCTCTAC	.	PASS	Atlas-SNP
DIDO1	11083	hgsc.bcm.edu	37	20	61512376	61512376	+	Silent	SNP	G	G	A	rs114534878	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	14	11	12	0	0.785714	0	G|0.975;A|0.025	0.025	strong	.	DIDO1	321	.	NM_001193369	exon16	c.C4932T	p.P1644P	CGTGGCGGGGCGG	.	PASS	Atlas-SNP
ATP9A	10079	hgsc.bcm.edu	37	20	50287790	50287790	+	Silent	SNP	A	A	G	rs2255342	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	99	92	1	1	0.0108696	A|0.278;G|0.722	0.722	strong	ATP9A,colon,carcinoma,-1,1	ATP9A	135	1	NM_006045	exon12	c.T1044C	p.R348R	GTTCACACGCAAA	.	scavenged	Atlas-SNP
SEMA5A	9037	hgsc.bcm.edu	37	5	9154659	9154659	+	Silent	SNP	G	G	C	rs1806151	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	170	204	0	0.594406	0	G|0.619;C|0.381	0.381	strong	SEMA5A,lymph_node,lymphoid_neoplasm,-1,1	SEMA5A	236	1	NM_003966	exon12	c.C1422G	p.G474G	CCGCAGGCCCACG	.	PASS	Atlas-SNP
C6orf15	29113	hgsc.bcm.edu	37	6	31080016	31080016	+	Missense_Mutation	SNP	C	C	G	rs2233974	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	64	98	0	0.457143	0	C|0.832;G|0.168	0.168	strong	.	C6orf15	29	.	NM_014070	exon2	c.G120C	p.L40F	GGTCCCCAAGTTT	.	PASS	Atlas-SNP
MLC1	23209	hgsc.bcm.edu	37	22	50502469	50502469	+	Silent	SNP	A	A	G	rs11568190	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	10	135	0	0.25	0	A|0.901;G|0.099	0.099	strong	MLC1,caecum,carcinoma,0,2	MLC1	48	2	NM_015166	exon11	c.T1053C	p.A351A	CTCCCCAGCCAGG	.	PASS	Atlas-SNP
SMAP1	60682	hgsc.bcm.edu	37	6	71546702	71546702	+	Missense_Mutation	SNP	C	C	T	rs2273566	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	64	134	0	0.463768	0	C|0.773;T|0.227	0.227	strong	.	SMAP1	77	.	NM_001044305	exon7	c.C635T	p.A212V	AAGCTGCGGAGCC	.	PASS	Atlas-SNP
ACER3	55331	hgsc.bcm.edu	37	11	76637680	76637680	+	Silent	SNP	G	G	A	rs4479014	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	84	107	0	1	0	G|0.422;A|0.578	0.578	strong	.	ACER3	19	.	NM_018367	exon2	c.G183A	p.K61K	GGAAAAGCGGTAC	.	PASS	Atlas-SNP
PADI4	23569	hgsc.bcm.edu	37	1	17662662	17662662	+	Silent	SNP	T	T	C	rs1748033	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	89	85	0	1	0	T|0.370;C|0.630	0.630	strong	.	PADI4	70	.	NM_012387	exon4	c.T349C	p.L117L	ATCTCCTTGTGCG	.	PASS	Atlas-SNP
CUL4A	8451	hgsc.bcm.edu	37	13	113909339	113909339	+	Missense_Mutation	SNP	A	A	G	rs2302757	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	155	140	0	0.99359	0	A|0.806;G|0.194	0.194	strong	.	CUL4A	50	.	NM_001008895	exon18	c.A1931G	p.K644R	GTCCCAAAGGAAA	.	PASS	Atlas-SNP
PGR	5241	hgsc.bcm.edu	37	11	100998771	100998771	+	Missense_Mutation	SNP	C	C	G	rs3740753	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	20	40	0	1	0	C|0.884;G|0.116	0.116	strong	.	PGR	115	.	NM_000926	exon1	c.G1031C	p.S344T	GGTGAACTCCGCG	.	PASS	Atlas-SNP
TTC13	79573	hgsc.bcm.edu	37	1	231042732	231042732	+	Silent	SNP	T	T	A	rs3811502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	221	247	0	1	0	T|0.505;A|0.495	0.495	strong	.	TTC13	74	.	NM_024525	exon23	c.A2502T	p.V834V	TTCTGATACTGAT	.	PASS	Atlas-SNP
CSPG5	10675	hgsc.bcm.edu	37	3	47618953	47618953	+	Missense_Mutation	SNP	C	C	A	rs3732530	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	46	86	0	0.511111	0	C|0.433;A|0.567	0.567	strong	.	CSPG5	46	.	NM_006574	exon2	c.G563T	p.G188V	TCTGGCCCTTGAG	.	PASS	Atlas-SNP
ELMO3	79767	hgsc.bcm.edu	37	16	67233243	67233243	+	Missense_Mutation	SNP	G	G	A	rs75193761	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	13	57	0	0.619048	0	G|0.976;A|0.024	0.024	strong	.	ELMO3	41	.	NM_024712	exon1	c.G173A	p.R58Q	CTCCGCGGAACGT	.	PASS	Atlas-SNP
HR	55806	hgsc.bcm.edu	37	8	21974427	21974427	+	Silent	SNP	G	G	T	rs112173147	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	13	20	0	0.590909	0	G|0.962;T|0.038	0.038	strong	.	HR	71	.	NM_005144	exon17	c.C3339A	p.P1113P	CTCTCCGGGGGCC	.	PASS	Atlas-SNP
VPS13C	54832	hgsc.bcm.edu	37	15	62223303	62223303	+	Missense_Mutation	SNP	C	C	G	rs78071599	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	42	103	0	0.494118	0	C|0.986;G|0.014	0.014	strong	.	VPS13C	506	.	NM_020821	exon50	c.G6024C	p.E2008D	TGCTCTCTCAATT	.	PASS	Atlas-SNP
C1QTNF9	338872	hgsc.bcm.edu	37	13	24895631	24895631	+	Missense_Mutation	SNP	T	T	A	rs78083136	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	371	71	406	0	0.191375	0	T|0.930;A|0.070	0.070	strong	.	C1QTNF9	22	.	NM_178540	exon4	c.T727A	p.C243S	TTCACGTGCCACA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195513345	195513345	+	Silent	SNP	A	A	C	rs71321841	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	660	275	552	0	0.416667	0	A|0.500;C|0.500	0.500	strong	.	MUC4	1505	.	NM_018406	exon2	c.T5106G	p.V1702V	CGAGGAAACGTCG	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140186937	140186937	+	Missense_Mutation	SNP	G	G	T	rs11167605	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	31	137	0	0.382716	0	G|0.714;T|0.286	0.286	strong	.	PCDHA4	419	.	NM_031500	exon1	c.G165T	p.E55D	ACTGGAGCTGGCG	.	PASS	Atlas-SNP
HLA-B	3106	hgsc.bcm.edu	37	6	31324143	31324143	+	Nonsense_Mutation	SNP	G	G	T	rs12697944	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	23	53	0	0.174242	0	T|0.046;G|0.954	0.046	strong	HLA-B,colon,carcinoma,-1,1	HLA-B	54	1	NM_005514	exon3	c.C420A	p.Y140X	GTAGGCGTACTGG	.	scavenged	Atlas-SNP
OR4Q3	441669	hgsc.bcm.edu	37	14	20216298	20216298	+	Missense_Mutation	SNP	T	T	C	rs12896533	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	139	129	1	0.992857	0.00775194	T|0.298;C|0.702	0.702	strong	.	OR4Q3	117	.	NM_172194	exon1	c.T712C	p.F238L	AAGGTCTTCTCTA	.	PASS	Atlas-SNP
ZNF117	51351	hgsc.bcm.edu	37	7	64439701	64439701	+	Missense_Mutation	SNP	C	C	T	rs3807069	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	58	118	0	1	0	C|0.612;T|0.388	0.388	strong	.	ZNF117	56	.	NM_015852	exon4	c.G248A	p.C83Y	TTATTACATTGAA	.	PASS	Atlas-SNP
TUBA3E	112714	hgsc.bcm.edu	37	2	130951657	130951657	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	514	6	506	1	0.0116732	0.00197628	.	.	none	TUBA3E,ear,carcinoma,0,1	TUBA3E	73	1	NM_207312	exon4	c.C758T	p.T253M	AATTCCGTCAAGT	.	scavenged	Atlas-SNP
EEF1G	1937	hgsc.bcm.edu	37	11	62334908	62334908	+	Silent	SNP	G	G	C	rs1061093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	41	93	0	0.460674	0	G|0.681;C|0.319	0.319	strong	.	EEF1G	33	.	NM_001404	exon6	c.C615G	p.G205G	CACTTCGCCCAAG	.	PASS	Atlas-SNP
ABCC8	6833	hgsc.bcm.edu	37	11	17496516	17496516	+	Silent	SNP	A	A	G	rs1048099	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	236	236	177	0	1	0	A|0.541;G|0.459	0.459	strong	.	ABCC8	170	.	NM_000352	exon2	c.T207C	p.P69P	GTGCCCAGGGAAA	.	PASS	Atlas-SNP
KLRC4	8302	hgsc.bcm.edu	37	12	10560957	10560957	+	Missense_Mutation	SNP	T	T	C	rs2617170	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	120	147	0	1	0	T|0.395;C|0.605	0.605	strong	KLRC4,caecum,carcinoma,0,1	KLRC4	23	1	NM_013431	exon3	c.A311G	p.N104S	GAAAAATTGTTCT	.	PASS	Atlas-SNP
NACA	4666	hgsc.bcm.edu	37	12	57114307	57114307	+	Missense_Mutation	SNP	A	A	T	rs2958127	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	110	102	0	1	0	A|0.412;T|0.588	0.588	strong	NACA_ENST00000550952,caecum,carcinoma,+1,1	NACA	131	1	NM_001113203	exon3	c.T1007A	p.V336E	GTCTTCACTGTAG	.	PASS	Atlas-SNP
KLK11	11012	hgsc.bcm.edu	37	19	51530741	51530741	+	Missense_Mutation	SNP	C	C	G	rs61752567	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	38	47	0	0.612903	0	C|0.927;G|0.073	0.073	strong	.	KLK11	28	.	NM_144947	exon1	c.G33C	p.K11N	CGATGACTTCCAG	.	PASS	Atlas-SNP
DISP2	85455	hgsc.bcm.edu	37	15	40660566	40660566	+	Silent	SNP	G	G	A	rs72733420	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	12	42	0	0.571429	0	G|0.847;A|0.153	0.153	strong	DISP2,NS,carcinoma,0,1	DISP2	86	1	NM_033510	exon8	c.G2253A	p.A751A	CGACGCGGAGTAT	.	scavenged	Atlas-SNP
PTPN23	25930	hgsc.bcm.edu	37	3	47452786	47452786	+	Silent	SNP	G	G	A	rs1531875	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	26	70	0	0.42623	0	G|0.529;A|0.471	0.471	strong	PTPN23,colon,carcinoma,0,1	PTPN23	85	1	NM_015466	exon20	c.G3498A	p.E1166E	CTATGAGCATCCT	.	PASS	Atlas-SNP
SLC22A25	387601	hgsc.bcm.edu	37	11	62931484	62931484	+	Missense_Mutation	SNP	T	T	C	rs6591771	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	282	278	241	0	0.985816	0	T|0.486;C|0.514	0.514	strong	.	SLC22A25	87	.	NM_199352	exon9	c.A1456G	p.M486V	TCATCATGAGGGA	.	PASS	Atlas-SNP
SLC6A17	388662	hgsc.bcm.edu	37	1	110735290	110735290	+	Silent	SNP	C	C	T	rs62636569	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	57	130	0	0.483051	0	C|0.969;T|0.031	0.031	strong	.	SLC6A17	86	.	NM_001010898	exon8	c.C1269T	p.D423D	CCTTGACCCCTGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	127	224	0	0.51417	0	C|0.676;T|0.324	0.324	strong	.	OR52I2	50	.	NM_001005170	exon1	c.C500T	p.T167M	TTCTCACGCCTCA	.	PASS	Atlas-SNP
ESR1	2099	hgsc.bcm.edu	37	6	152129077	152129077	+	Silent	SNP	T	T	C	rs2077647	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	49	100	0	0.521277	0	T|0.538;C|0.462	0.462	strong	.	ESR1	94	.	NM_000125	exon1	c.T30C	p.S10S	AGCATCTGGGATG	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388508	1388508	+	Missense_Mutation	SNP	T	T	C	rs55703801	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	291	47	294	2	0.161512	0.00680272	.	.	weak	CRIPAK,rectum,carcinoma,0,1	CRIPAK	185	1	NM_175918	exon1	c.T209C	p.V70A	CACGTGTCCATGT	.	scavenged	Atlas-SNP
PSMB4	5692	hgsc.bcm.edu	37	1	151374025	151374025	+	Missense_Mutation	SNP	T	T	C	rs4603	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	43	96	0	0.477778	0	T|0.835;C|0.165	0.165	strong	.	PSMB4	18	.	NM_002796	exon6	c.T701C	p.I234T	TTCAAATCGCCAC	.	PASS	Atlas-SNP
ZC2HC1A	51101	hgsc.bcm.edu	37	8	79609647	79609647	+	Silent	SNP	G	G	A	rs35904168	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	25	55	0	0.446429	0	G|0.946;A|0.054	0.054	strong	.	.	.	.	NM_016010	exon6	c.G510A	p.K170K	GTATAAGCCACCC	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5410425	5410425	+	Missense_Mutation	SNP	G	G	C	rs12671708	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	25	133	0	0.568182	0	G|0.632;C|0.368	0.368	strong	.	TNRC18	311	.	NM_001080495	exon11	c.C3800G	p.A1267G	GGCACCGCCACAG	.	PASS	Atlas-SNP
RALB	5899	hgsc.bcm.edu	37	2	121036333	121036333	+	Silent	SNP	G	G	A	rs11545293	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	43	102	0	0.511905	0	G|0.926;A|0.074	0.074	strong	.	RALB	27	.	NM_002881	exon2	c.G93A	p.T31T	CCTGACGCTTCAG	.	PASS	Atlas-SNP
DAXX	1616	hgsc.bcm.edu	37	6	33288271	33288271	+	Silent	SNP	A	A	G	rs1059231	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	44	57	0	0.721311	0	A|0.778;G|0.222	0.222	strong	.	DAXX	111	.	NM_001141970	exon4	c.T1173C	p.Y391Y	CATTGCATATTTG	.	PASS	Atlas-SNP
POU4F3	5459	hgsc.bcm.edu	37	5	145718765	145718765	+	Silent	SNP	C	C	T	rs28994879	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	83	102	0	0.669355	0	C|0.969;T|0.031	0.031	strong	.	POU4F3	47	.	NM_002700	exon1	c.C90T	p.A30A	CGAGGCCATGCGC	.	PASS	Atlas-SNP
SCIMP	388325	hgsc.bcm.edu	37	17	5126689	5126689	+	Silent	SNP	G	G	A	rs2585271	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	103	142	0	1	0	G|0.593;N|0.000	.	strong	.	.	.	.	NM_207103	exon2	c.C84T	p.I28I	GACAACGATGATG	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	37	7	5347914	5347914	+	Silent	SNP	G	G	A	rs11554710	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	278	122	286	0	0.438849	0	G|0.862;A|0.138	0.138	strong	TNRC18_ENST00000430969,caecum,carcinoma,0,3	TNRC18	311	3	NM_001080495	exon30	c.C8730T	p.D2910D	ATTTTCGTCCACA	.	PASS	Atlas-SNP
NAA40	79829	hgsc.bcm.edu	37	11	63713317	63713317	+	Silent	SNP	G	G	A	rs3740637	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	128	109	0	1	0	G|0.756;A|0.244	0.244	strong	.	NAA40	13	.	NM_024771	exon2	c.G12A	p.K4K	GAGAAAGTCAAGC	.	PASS	Atlas-SNP
PUS3	83480	hgsc.bcm.edu	37	11	125766173	125766173	+	Missense_Mutation	SNP	A	A	C	rs622756	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	230	210	0	1	0	A|0.194;C|0.806	0.806	strong	.	PUS3	33	.	NM_031307	exon2	c.T7G	p.Y3D	CATTATAAGCCAT	.	PASS	Atlas-SNP
EZH2	2146	hgsc.bcm.edu	37	7	148525904	148525904	+	Missense_Mutation	SNP	C	C	G	rs2302427	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	83	204	0	0.588652	0	C|0.926;G|0.074	0.074	strong	EZH2_ENST00000350995,NS,carcinoma,+2,2	EZH2	823	2	NM_001203247	exon6	c.G553C	p.D185H	CATCGTCATCATC	.	PASS	Atlas-SNP
FGF21	26291	hgsc.bcm.edu	37	19	49261267	49261267	+	Silent	SNP	C	C	T	rs3745710	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	137	167	0	0.985611	0	C|0.943;T|0.057	0.057	strong	.	FGF21	21	.	NM_019113	exon3	c.C420T	p.H140H	AGCCCACGGCCTC	.	PASS	Atlas-SNP
FAM187B	148109	hgsc.bcm.edu	37	19	35718891	35718891	+	Nonsense_Mutation	SNP	C	C	T	rs35001809	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	55	142	0	0.335366	0	C|0.978;T|0.022	0.022	strong	.	FAM187B	28	.	NM_152481	exon1	c.G693A	p.W231X	GTCGAGCCACACA	.	PASS	Atlas-SNP
CCDC111	201973	hgsc.bcm.edu	37	4	185615768	185615768	+	Silent	SNP	T	T	G	rs3184982	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	105	211	1	0.483871	0.00473934	T|0.822;G|0.178	0.178	strong	.	CCDC111	43	.	NM_152683	exon14	c.T1518G	p.G506G	AACAGGTGCATCT	.	PASS	Atlas-SNP
FAM105A	54491	hgsc.bcm.edu	37	5	14610309	14610309	+	Missense_Mutation	SNP	C	C	G	rs16903574	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	52	70	0	0.577778	0	C|0.954;G|0.046	0.046	strong	.	FAM105A	32	.	NM_019018	exon8	c.C957G	p.F319L	ACTGTTCAAGTTT	.	PASS	Atlas-SNP
HTRA4	203100	hgsc.bcm.edu	37	8	38835666	38835666	+	Silent	SNP	T	T	C	rs4733961	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	74	74	0	1	0	T|0.228;C|0.772	0.772	strong	.	HTRA4	25	.	NM_153692	exon4	c.T966C	p.N322N	AATTAATGTAAGT	.	PASS	Atlas-SNP
OR5W2	390148	hgsc.bcm.edu	37	11	55681865	55681865	+	Missense_Mutation	SNP	T	T	C	rs12419022	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	69	141	0	0.466216	0	T|0.900;C|0.100	0.100	strong	.	OR5W2	112	.	NM_001001960	exon1	c.A194G	p.H65R	GACAGATGACTGA	.	PASS	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	37	X	1531687	1531687	+	Missense_Mutation	SNP	T	T	C	rs79968027	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	462	220	483	0	0.47619	0	T|0.962;C|0.038	0.038	strong	.	ASMTL	56	.	NM_004192	exon12	c.A1583G	p.H528R	CAGTCATGCAGGA	.	PASS	Atlas-SNP
LRIG1	26018	hgsc.bcm.edu	37	3	66434674	66434674	+	Silent	SNP	C	C	T	rs140903952	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	341	147	296	0	0.431085	0	C|0.999;T|0.001	0.001	strong	LRIG1,colon,carcinoma,0,1	LRIG1	138	1	NM_015541	exon14	c.G1812A	p.T604T	GTGGGGCGTTTTG	.	PASS	Atlas-SNP
DENND4C	55667	hgsc.bcm.edu	37	9	19290732	19290732	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	31	44	0	0.688889	0	.	.	none	.	DENND4C	120	.	NM_017925	exon5	c.A659G	p.Y220C	AGGACTATGAGTC	.	PASS	Atlas-SNP
OR52W1	120787	hgsc.bcm.edu	37	11	6221305	6221305	+	Missense_Mutation	SNP	C	C	G	rs374054864		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	46	97	0	0.438095	0	.	.	weak	.	OR52W1	33	.	NM_001005178	exon1	c.C852G	p.N284K	CTCCAACATCTAC	.	PASS	Atlas-SNP
SERPINA9	327657	hgsc.bcm.edu	37	14	94933473	94933473	+	Missense_Mutation	SNP	C	C	A	rs28618118	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	117	193	1	0.539171	0.00518135	C|0.677;A|0.323	0.323	strong	.	SERPINA9	105	.	NM_175739	exon3	c.G929T	p.R310I	CACTTTCTCAGTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9077264	9077264	+	Silent	SNP	T	T	G	rs1862461	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	302	141	336	0	0.466887	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
PLXNA3	55558	hgsc.bcm.edu	37	X	153689643	153689643	+	Missense_Mutation	SNP	G	G	A	rs145244142	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	49	121	0	1	0	G|0.999;A|0.001	0.001	strong	.	PLXNA3	156	.	NM_017514	exon3	c.G799A	p.A267T	ATGTGCGCGGGAG	.	PASS	Atlas-SNP
ZNF416	55659	hgsc.bcm.edu	37	19	58084588	58084588	+	Missense_Mutation	SNP	G	G	C	rs145794172	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	94	185	0	0.484536	0	G|0.994;C|0.006	0.006	strong	.	ZNF416	50	.	NM_017879	exon4	c.C684G	p.H228Q	AAAAGTGTGTTTG	.	PASS	Atlas-SNP
SLC13A5	284111	hgsc.bcm.edu	37	17	6597480	6597480	+	Silent	SNP	G	G	A	rs55698160	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	36	72	0	0.75	0	G|0.908;A|0.092	0.092	strong	.	SLC13A5	57	.	NM_001143838	exon8	c.C1092T	p.A364A	CAGGGTGGCCACA	.	PASS	Atlas-SNP
BRF1	2972	hgsc.bcm.edu	37	14	105688082	105688082	+	Silent	SNP	C	C	T	rs28406206	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	51	88	0	0.536842	0	C|0.927;T|0.073	0.073	strong	.	BRF1	102	.	NM_001519	exon11	c.G1218A	p.P406P	CAGGGCCGGAGGT	.	PASS	Atlas-SNP
KSR1	8844	hgsc.bcm.edu	37	17	25909816	25909816	+	Missense_Mutation	SNP	C	C	T	rs2293180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	86	179	0	0.511905	0	C|0.840;T|0.160	0.160	strong	.	KSR1	151	.	NM_014238	exon5	c.C254T	p.A85V	ACAGCGCCCAGGG	.	PASS	Atlas-SNP
KLHL3	26249	hgsc.bcm.edu	37	5	136969793	136969793	+	Silent	SNP	C	C	T	rs2301708	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	62	68	0	0.681319	0	C|0.814;T|0.186	0.186	strong	KLHL3,NS,carcinoma,0,1	KLHL3	54	1	NM_017415	exon12	c.G1383A	p.E461E	GTACTGCTCCACA	.	PASS	Atlas-SNP
ZNF100	163227	hgsc.bcm.edu	37	19	21909875	21909875	+	Silent	SNP	G	G	A	rs115256934	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	35	65	0	0.522388	0	G|0.990;A|0.010	0.010	strong	.	ZNF100	62	.	NM_173531	exon5	c.C1239T	p.S413S	GGCTGAGGACCAG	.	PASS	Atlas-SNP
CAPSL	133690	hgsc.bcm.edu	37	5	35910529	35910529	+	Missense_Mutation	SNP	C	C	T	rs1445898	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	206	188	1	1	0.00531915	C|0.556;T|0.444	0.444	strong	.	CAPSL	68	.	NM_144647	exon3	c.G254A	p.R85Q	AACCTCCGGAAAA	.	PASS	Atlas-SNP
DBN1	1627	hgsc.bcm.edu	37	5	176885499	176885499	+	Missense_Mutation	SNP	T	T	C	rs2544809	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	626	625	797	2	0.998403	0.00250941	T|0.522;C|0.478	0.478	strong	.	DBN1	122	.	NM_080881	exon13	c.A1342G	p.I448V	CGTGGATCTCCGT	.	PASS	Atlas-SNP
SAMD7	344658	hgsc.bcm.edu	37	3	169644710	169644710	+	Missense_Mutation	SNP	G	G	C	rs10513680	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	76	103	0	0.598425	0	G|0.864;C|0.136	0.136	strong	.	SAMD7	69	.	NM_182610	exon6	c.G660C	p.E220D	TGAAGAGGATCAT	.	PASS	Atlas-SNP
ZNF853	54753	hgsc.bcm.edu	37	7	6660790	6660790	+	Silent	SNP	G	G	A	rs940873	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	43	119	0	0.434343	0	G|0.644;A|0.356	0.356	strong	.	ZNF853	32	.	NM_017560	exon3	c.G168A	p.E56E	GGAAGAGCCTCAG	.	PASS	Atlas-SNP
TMEM132C	92293	hgsc.bcm.edu	37	12	129190474	129190474	+	Silent	SNP	G	G	A	rs3812792	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	80	76	0	0.97561	0	G|0.497;A|0.503	0.503	strong	TMEM132C_ENST00000435159,NS,carcinoma,+1,4	TMEM132C	142	4	NM_001136103	exon9	c.G2961A	p.A987A	GGATGCGCCGCCG	.	PASS	Atlas-SNP
CNR2	1269	hgsc.bcm.edu	37	1	24201162	24201162	+	Missense_Mutation	SNP	G	G	A	rs2229579	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	88	228	0	0.369748	0	G|0.906;T|0.006	.	strong	.	CNR2	78	.	NM_001841	exon2	c.C946T	p.H316Y	TCCAGTGAGCCAG	.	PASS	Atlas-SNP
NXPE3	91775	hgsc.bcm.edu	37	3	101540387	101540387	+	Missense_Mutation	SNP	T	T	G	rs35598292	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	90	152	0	0.523256	0	T|0.974;G|0.026	0.026	strong	.	.	.	.	NM_145037	exon8	c.T1269G	p.H423Q	GCTCCATTATGTG	.	PASS	Atlas-SNP
MEP1A	4224	hgsc.bcm.edu	37	6	46801092	46801092	+	Missense_Mutation	SNP	A	A	G	rs12197930	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	68	113	0	0.561983	0	A|0.957;G|0.043	0.043	strong	.	MEP1A	93	.	NM_005588	exon11	c.A1426G	p.R476G	AATAGCAGAGAAA	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1026048	1026048	+	Silent	SNP	G	G	A	rs55965773	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	51	122	0	0.476636	0	G|0.902;A|0.098	0.098	strong	.	MUC6	408	.	NM_005961	exon21	c.C2640T	p.D880D	CTGGCCGTCGAAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509525	195509525	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	274	12	133	4	0.0437956	0.0300752	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C8926T	p.P2976S	GAAGAGGGGTGGC	.	scavenged	Atlas-SNP
WDR91	29062	hgsc.bcm.edu	37	7	134879830	134879830	+	Silent	SNP	G	G	A	rs292575	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	44	96	0	0.444444	0	G|0.346;A|0.654	0.654	strong	.	WDR91	82	.	NM_014149	exon9	c.C1251T	p.D417D	AGAGCAGTCCACT	.	PASS	Atlas-SNP
XRCC6BP1	91419	hgsc.bcm.edu	37	12	58350631	58350631	+	Silent	SNP	C	C	T	rs10122	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	46	100	0	0.45098	0	C|0.485;T|0.515	0.515	strong	.	XRCC6BP1	22	.	NM_033276	exon6	c.C699T	p.H233H	TGCTCACAGAGAC	.	PASS	Atlas-SNP
PLTP	5360	hgsc.bcm.edu	37	20	44540037	44540037	+	Missense_Mutation	SNP	A	A	G	rs151157782	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	26	47	0	0.52	0	A|0.999;G|0.001	0.001	strong	.	PLTP	49	.	NM_182676	exon2	c.T55C	p.F19L	CTGGGAACTCTGC	.	PASS	Atlas-SNP
BAI1	575	hgsc.bcm.edu	37	8	143623459	143623459	+	Silent	SNP	G	G	T	rs34364916	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	59	155	0	0.513043	0	G|0.865;T|0.135	0.135	strong	.	BAI1	146	.	NM_001702	exon27	c.G3864T	p.L1288L	GCACCTGCACGGC	.	PASS	Atlas-SNP
TLR3	7098	hgsc.bcm.edu	37	4	187004074	187004074	+	Missense_Mutation	SNP	C	C	T	rs3775291	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	54	96	0	0.446281	0	C|0.781;T|0.219	0.219	strong	TLR3,NS,carcinoma,0,1	TLR3	83	1	NM_003265	exon4	c.C1234T	p.L412F	CACATACTCAACC	.	PASS	Atlas-SNP
ATP8B2	57198	hgsc.bcm.edu	37	1	154317153	154317153	+	Silent	SNP	C	C	T	rs1194587	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	66	118	0	0.47482	0	C|0.608;T|0.392	0.392	strong	.	ATP8B2	158	.	NM_020452	exon21	c.C2277T	p.S759S	CCGCTCCGTAGGC	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2836041	2836041	+	Missense_Mutation	SNP	A	A	T	rs67272620	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	45	124	0	0.405405	0	A|0.500;T|0.500	0.500	strong	.	ARSD	47	.	NM_001669	exon5	c.T667A	p.F223I	CAGAGAAGAAACC	.	PASS	Atlas-SNP
TTLL3	26140	hgsc.bcm.edu	37	3	9870857	9870857	+	Silent	SNP	G	G	A	rs2290303	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	71	139	0	0.529851	0	G|0.623;A|0.377	0.377	strong	.	TTLL3	51	.	NM_001025930	exon10	c.G1761A	p.Q587Q	CGTGCAGTGTCGG	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38119859	38119859	+	Silent	SNP	C	C	T	rs66505048	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	320	7	307	1	0.021875	0.00325733	C|0.500;T|0.500	0.500	strong	TRIOBP_ENST00000344404,NS,carcinoma,0,8	TRIOBP	262	8	NM_001039141	exon7	c.C1296T	p.C432C	ATCCTGCGCCCAG	.	scavenged	Atlas-SNP
TRUB2	26995	hgsc.bcm.edu	37	9	131073842	131073842	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	20	126	0	0.145985	0	.	.	none	.	TRUB2	26	.	NM_015679	exon6	c.G499A	p.V167I	GGATAACGGCCAG	.	PASS	Atlas-SNP
URGCP	55665	hgsc.bcm.edu	37	7	43916727	43916727	+	Missense_Mutation	SNP	T	T	G	rs2232108	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	80	116	0	0.506329	0	T|0.515;G|0.485	0.485	strong	.	URGCP	170	.	NM_001077663	exon6	c.A2335C	p.M779L	GTCCCATGAGCAG	.	PASS	Atlas-SNP
C2orf71	388939	hgsc.bcm.edu	37	2	29294754	29294754	+	Missense_Mutation	SNP	G	G	C	rs17744093	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	60	132	0	0.512821	0	G|0.836;C|0.164	0.164	strong	.	C2orf71	146	.	NM_001029883	exon1	c.C2374G	p.L792V	TTTTGAGAGATTC	.	PASS	Atlas-SNP
DAB2	1601	hgsc.bcm.edu	37	5	39376988	39376988	+	Missense_Mutation	SNP	C	C	T	rs3733801	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	63	137	0	0.45	0	C|0.904;T|0.096	0.096	strong	.	DAB2	124	.	NM_001343	exon12	c.G1901A	p.S634N	GCATCACTGGAGA	.	PASS	Atlas-SNP
C17orf49	124944	hgsc.bcm.edu	37	17	6919093	6919093	+	Silent	SNP	T	T	C	rs14309	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	118	106	0	0.991597	0	T|0.229;C|0.771	0.771	strong	.	C17orf49	28	.	NM_174893	exon3	c.T117C	p.G39G	TGACAGTGCGAAG	.	PASS	Atlas-SNP
MDM2	4193	hgsc.bcm.edu	37	12	69233215	69233215	+	Silent	SNP	A	A	G	rs769412	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	55	100	0	0.482456	0	A|0.927;G|0.073	0.073	strong	.	MDM2	92	.	NM_002392	exon11	c.A1080G	p.E360E	AGCTGAAGAGGGC	.	PASS	Atlas-SNP
DAGLA	747	hgsc.bcm.edu	37	11	61511133	61511133	+	Silent	SNP	G	G	A	rs3741251	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	9	25	0	0.5625	0	G|0.868;A|0.132	0.132	strong	.	DAGLA	109	.	NM_006133	exon20	c.G2301A	p.A767A	GCTGGCGGCGGAG	.	PASS	Atlas-SNP
TBC1D8	11138	hgsc.bcm.edu	37	2	101644855	101644855	+	Silent	SNP	G	G	A	rs11683877	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	37	70	0	0.445783	0	G|0.795;A|0.205	0.205	strong	TBC1D8_ENST00000376840,NS,carcinoma,0,1	TBC1D8	169	1	NM_001102426	exon13	c.C2217T	p.P739P	AACTGGGGGCCCT	.	PASS	Atlas-SNP
ST14	6768	hgsc.bcm.edu	37	11	130068491	130068491	+	Silent	SNP	G	G	C	rs11827924	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	92	180	1	0.5	0.00555556	G|0.868;C|0.132	0.132	strong	ST14,NS,malignant_melanoma,+1,1	ST14	82	1	NM_021978	exon14	c.G1659C	p.G553G	GGACGGGTCCGAC	.	scavenged	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	37	3	130124491	130124491	+	Silent	SNP	G	G	A	rs10934940	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	163	185	0	0.987879	0	G|0.508;A|0.492	0.492	strong	COL6A5,colon,carcinoma,0,1	COL6A5	205	1	NM_153264	exon14	c.G4341A	p.A1447A	AGGGGCGTGGGGT	.	PASS	Atlas-SNP
EFHB	151651	hgsc.bcm.edu	37	3	19975215	19975215	+	Missense_Mutation	SNP	C	C	A	rs17795400	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	277	171	349	0	0.617329	0	C|0.797;A|0.202	0.202	strong	.	EFHB	186	.	NM_144715	exon1	c.G296T	p.G99V	TTTGTTCCCTGTG	.	PASS	Atlas-SNP
SLC2A11	66035	hgsc.bcm.edu	37	22	24224659	24224659	+	Silent	SNP	C	C	A	rs9612499	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	18	32	0	0.5625	0	C|0.674;A|0.326	0.326	strong	.	SLC2A11	32	.	NM_030807	exon8	c.C720A	p.L240L	GCGGCTCCGGGGC	.	PASS	Atlas-SNP
OR8B8	26493	hgsc.bcm.edu	37	11	124310622	124310622	+	Silent	SNP	A	A	G	rs4296049	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	52	82	0	0.571429	0	A|0.756;G|0.244	0.244	strong	.	OR8B8	76	.	NM_012378	exon1	c.T360C	p.Y120Y	GCGGTCATACGCC	.	PASS	Atlas-SNP
PBOV1	59351	hgsc.bcm.edu	37	6	138539315	138539315	+	Missense_Mutation	SNP	A	A	G	rs6927706	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	270	85	254	0	0.314815	0	A|0.855;G|0.145	0.145	strong	.	PBOV1	12	.	NM_021635	exon1	c.T218C	p.I73T	TGTTCTATGGAAT	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158582646	158582646	+	Silent	SNP	T	T	C	rs2251969	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	115	115	0	1	0	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	.	PASS	Atlas-SNP
KIAA1429	25962	hgsc.bcm.edu	37	8	95541302	95541302	+	Silent	SNP	A	A	G	rs957448	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	103	210	0	0.488152	0	A|0.691;G|0.309	0.309	strong	.	KIAA1429	176	.	NM_015496	exon7	c.T876C	p.G292G	ACCTTCACCTTCT	.	PASS	Atlas-SNP
LILRB3	11025	hgsc.bcm.edu	37	19	54726241	54726241	+	Missense_Mutation	SNP	C	C	T	rs77279742	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	756	245	471	1	0.324074	0.00212314	C|0.581;T|0.419	0.419	strong	LILRB3,NS,haematopoietic_neoplasm,0,2	LILRB3	67	2	NM_006864	exon3	c.G264A	p.M88I	CTCTGTCATGGAT	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1042809	1042809	+	Missense_Mutation	SNP	A	A	G	rs3764645	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	41	59	0	0.577465	0	A|0.609;G|0.391	0.391	strong	.	ABCA7	174	.	NM_019112	exon7	c.A563G	p.E188G	CCGCTGAGGACCT	.	PASS	Atlas-SNP
THBS4	7060	hgsc.bcm.edu	37	5	79361265	79361265	+	Missense_Mutation	SNP	G	G	C	rs1866389	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	71	153	0	0.533835	0	G|0.840;C|0.160	0.160	strong	.	THBS4	82	.	NM_003248	exon9	c.G1159C	p.A387P	AATGGAGCGTGCG	.	PASS	Atlas-SNP
IL31RA	133396	hgsc.bcm.edu	37	5	55206444	55206444	+	Missense_Mutation	SNP	G	G	A	rs161704	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	255	126	239	0	0.494118	0	G|0.694;N|0.000	.	strong	.	IL31RA	84	.	NM_001242637	exon12	c.G1586A	p.S529N	TGGCCAGCACCAG	.	PASS	Atlas-SNP
CR1L	1379	hgsc.bcm.edu	37	1	207872595	207872595	+	Missense_Mutation	SNP	A	A	G	rs12729569	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	553	275	469	0	0.497288	0	A|0.831;G|0.169	0.169	strong	.	CR1L	97	.	NM_175710	exon8	c.A1204G	p.N402D	CTTTGGAATAGCA	.	PASS	Atlas-SNP
ANG	283	hgsc.bcm.edu	37	14	21162053	21162053	+	Silent	SNP	T	T	G	rs11701	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	49	114	0	0.4375	0	T|0.871;G|0.129	0.129	strong	.	ANG	8	.	NM_001097577	exon2	c.T330G	p.G110G	TGGAGGTTCCCCC	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140558314	140558314	+	Silent	SNP	T	T	C	rs17844487	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	491	47	359	0	0.095723	0	T|0.929;C|0.071	0.071	strong	.	PCDHB8	199	.	NM_019120	exon1	c.T699C	p.V233V	TGAAGTTGTCGAT	.	PASS	Atlas-SNP
NLRC5	84166	hgsc.bcm.edu	37	16	57060724	57060724	+	Silent	SNP	G	G	A	rs13339199	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	89	165	0	0.517442	0	G|0.895;A|0.105	0.105	strong	.	NLRC5	186	.	NM_032206	exon5	c.G1869A	p.Q623Q	GACACAGGAGCCT	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134726621	134726621	+	Silent	SNP	G	G	C	rs4880467	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	161	188	0	1	0	G|0.740;C|0.260	0.260	strong	.	TTC40	100	.	NM_001200049	exon18	c.C2262G	p.A754A	CCGCCCGGCCAGG	.	PASS	Atlas-SNP
TPTE	7179	hgsc.bcm.edu	37	21	10942756	10942756	+	Nonsense_Mutation	SNP	G	G	A	rs1810540	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	577	147	327	1	0.254766	0.0030581	G|0.905;A|0.095	0.095	strong	TPTE_ENST00000361285,NS,carcinoma,+1,4	TPTE	513	4	NM_199261	exon13	c.C685T	p.R229X	TGTATCGCCTTTT	.	scavenged	Atlas-SNP
LLGL2	3993	hgsc.bcm.edu	37	17	73568055	73568055	+	Silent	SNP	C	C	T	rs1661714	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	38	60	0	0.5	0	C|0.747;T|0.253	0.253	strong	.	LLGL2	155	.	NM_004524	exon19	c.C2370T	p.P790P	CCTTCCCGAGCCC	.	PASS	Atlas-SNP
TVP23C	201158	hgsc.bcm.edu	37	17	15406197	15406197	+	Missense_Mutation	SNP	A	A	T	rs12150518	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	74	113	0	0.451219	0	A|0.951;T|0.049	0.049	strong	.	.	.	.	NM_145301	exon6	c.T812A	p.L271Q	GATGCCAGATGAA	.	PASS	Atlas-SNP
SRA1	10011	hgsc.bcm.edu	37	5	139936760	139936760	+	Nonsense_Mutation	SNP	G	G	T	rs250426	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	45	141	0	0.3	0	A|0.000;G|0.374;T|0.626	0.626	strong	.	SRA1	24	.	NM_001253764	exon1	c.C278A	p.S93X	TGCGGCGACCCTC	.	PASS	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	37	22	18300879	18300879	+	Silent	SNP	G	G	A	rs11704809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	51	127	0	0.6375	0	G|0.800;A|0.200	0.200	strong	.	MICAL3	53	.	NM_015241	exon26	c.C4548T	p.S1516S	CTCCACGCTCTCC	.	PASS	Atlas-SNP
SAG	6295	hgsc.bcm.edu	37	2	234255547	234255547	+	Missense_Mutation	SNP	G	G	A	rs1046974	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	30	71	0	0.333333	0	G|0.696;A|0.304	0.304	strong	.	SAG	77	.	NM_000541	exon16	c.G1207A	p.V403I	AATGACGTTGATG	.	PASS	Atlas-SNP
SERPINA9	327657	hgsc.bcm.edu	37	14	94933640	94933640	+	Missense_Mutation	SNP	A	A	T	rs28583900	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	65	104	0	0.643564	0	A|0.681;T|0.319	0.319	strong	.	SERPINA9	105	.	NM_175739	exon3	c.T762A	p.H254Q	GGGGACATGCACA	.	PASS	Atlas-SNP
GSDMC	56169	hgsc.bcm.edu	37	8	130789767	130789767	+	Missense_Mutation	SNP	G	G	A	rs10090835	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	29	83	0	0.414286	0	G|0.973;A|0.027	0.027	strong	.	GSDMC	71	.	NM_031415	exon2	c.C67T	p.P23S	TGACAGGTGTCAG	.	PASS	Atlas-SNP
OR51S1	119692	hgsc.bcm.edu	37	11	4870269	4870269	+	Missense_Mutation	SNP	A	A	T	rs12417164	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	146	288	0	0.493243	0	A|0.842;T|0.158	0.158	strong	.	OR51S1	83	.	NM_001004758	exon1	c.T170A	p.I57N	AGGGCAATGATCC	.	PASS	Atlas-SNP
PADI4	23569	hgsc.bcm.edu	37	1	17660499	17660499	+	Missense_Mutation	SNP	G	G	C	rs874881	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	28	95	0	0.394366	0	G|0.467;C|0.533	0.533	strong	.	PADI4	70	.	NM_012387	exon3	c.G335C	p.G112A	TCACCGGGGTGGG	.	PASS	Atlas-SNP
CENPQ	55166	hgsc.bcm.edu	37	6	49439805	49439805	+	Missense_Mutation	SNP	G	G	A	rs4267943	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	26	49	0	0.52	0	G|0.653;A|0.347	0.347	strong	.	CENPQ	23	.	NM_018132	exon4	c.G187A	p.G63R	AAACACGGAAAGA	.	PASS	Atlas-SNP
OR10G2	26534	hgsc.bcm.edu	37	14	22102293	22102293	+	Missense_Mutation	SNP	C	C	T	rs56451138		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	21	424	0	0.0941704	0	C|0.750;T|0.250	0.250	weak	OR10G2,NS,carcinoma,0,1	OR10G2	35	1	NM_001005466	exon1	c.G706A	p.A236T	CATCAGCGGTGCG	.	scavenged	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	37	5	96129535	96129535	+	Missense_Mutation	SNP	T	T	C	rs2287987	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	191	215	0	1	0	T|0.857;C|0.143	0.143	strong	.	ERAP1	59	.	NM_001198541	exon6	c.A1045G	p.M349V	CAGTCATTGTGAT	.	PASS	Atlas-SNP
ACOX2	8309	hgsc.bcm.edu	37	3	58512375	58512375	+	Silent	SNP	T	T	C	rs1127743	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	74	138	0	0.443114	0	T|0.826;G|0.008	.	strong	.	ACOX2	53	.	NM_003500	exon10	c.A1164G	p.A388A	GCTCAGTGCGTGG	.	PASS	Atlas-SNP
B4GALT5	9334	hgsc.bcm.edu	37	20	48259034	48259034	+	Silent	SNP	A	A	G	rs2235855	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	48	73	0	0.55814	0	A|0.541;G|0.459	0.459	strong	.	B4GALT5	40	.	NM_004776	exon5	c.T577C	p.L193L	ACTGCAAGCGCTG	.	PASS	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	37	20	33581955	33581955	+	Silent	SNP	G	G	A	rs2425012	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	75	169	0	0.460123	0	G|0.585;A|0.415	0.415	strong	.	MYH7B	145	.	NM_020884	exon27	c.G2577A	p.A859A	GGATGCGCTGTTC	.	PASS	Atlas-SNP
QSOX1	5768	hgsc.bcm.edu	37	1	180159657	180159657	+	Silent	SNP	C	C	T	rs1050154	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	93	139	0	0.550296	0	C|0.864;T|0.136	0.136	strong	.	QSOX1	79	.	NM_002826	exon10	c.C1230T	p.L410L	GGTCCTCTTCCAC	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43506059	43506059	+	Silent	SNP	A	A	G	rs2304329	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	82	80	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
HEPACAM	220296	hgsc.bcm.edu	37	11	124793716	124793716	+	Silent	SNP	G	G	A	rs10790716	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	37	94	0	0.37	0	G|0.814;A|0.186	0.186	strong	.	HEPACAM	64	.	NM_152722	exon3	c.C618T	p.R206R	GAGCACGCGGGTG	.	PASS	Atlas-SNP
FN3KRP	79672	hgsc.bcm.edu	37	17	80684843	80684843	+	Silent	SNP	G	G	A	rs146293327	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	65	89	0	0.507812	0	G|0.999;A|0.001	0.001	strong	FN3KRP,right_upper_lobe,carcinoma,+1,2	FN3KRP	31	2	NM_024619	exon6	c.G726A	p.S242S	CCACTCGGAATAT	.	PASS	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	37	18	13068109	13068109	+	Missense_Mutation	SNP	G	G	A	rs7228940	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	29	64	0	0.42029	0	G|0.852;A|0.148	0.148	strong	.	CEP192	340	.	NM_032142	exon23	c.G4631A	p.R1544H	CCTGGCGCTGTTT	.	PASS	Atlas-SNP
OR2T2	401992	hgsc.bcm.edu	37	1	248616749	248616749	+	Silent	SNP	C	C	G	rs1770044	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	315	11	535	11	0.0349206	0.0205607	C|0.500;G|0.500	0.500	strong	OR2T2,NS,carcinoma,0,1	OR2T2	73	1	NM_001004136	exon1	c.C651G	p.V217V	CTCTGTCTCCTAC	.	scavenged	Atlas-SNP
ANKUB1	389161	hgsc.bcm.edu	37	3	149488442	149488442	+	Silent	SNP	A	A	G	rs7630153	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	41	74	0	0.621212	0	A|0.690;G|0.310	0.310	strong	ANKUB1,NS,carcinoma,-2,1	ANKUB1	27	1	NM_001144960	exon4	c.T471C	p.D157D	CCAGACATCCAAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	46	98	1	0.522727	0.0102041	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	.	scavenged	Atlas-SNP
CHDH	55349	hgsc.bcm.edu	37	3	53855738	53855738	+	Silent	SNP	G	G	C	rs35064726	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	42	77	0	0.428571	0	G|0.958;C|0.042	0.042	strong	.	CHDH	34	.	NM_018397	exon5	c.C921G	p.L307L	GCCAGAGAGCATG	.	PASS	Atlas-SNP
CCDC169	728591	hgsc.bcm.edu	37	13	36828237	36828237	+	Missense_Mutation	SNP	T	T	C	rs9546897	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	22	47	0	0.594595	0	T|0.629;C|0.371	0.371	strong	.	CCDC169	20	.	NM_001144981	exon5	c.A359G	p.K120R	AGAGTCTTCTTTT	.	PASS	Atlas-SNP
IL33	90865	hgsc.bcm.edu	37	9	6253571	6253571	+	Silent	SNP	C	C	T	rs10975519	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	58	92	0	0.517857	0	C|0.633;T|0.367	0.367	strong	.	IL33	27	.	NM_033439	exon6	c.C489T	p.Y163Y	GAGTTACTATGAG	.	PASS	Atlas-SNP
OR2T5	401993	hgsc.bcm.edu	37	1	248652049	248652049	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1045	302	702	0	0.288995	0	.	.	none	.	OR2T5	17	.	NM_001004697	exon1	c.C160T	p.H54Y	CTGATACACTGTG	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225580093	225580093	+	Missense_Mutation	SNP	G	G	C	rs61738690	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	80	170	0	0.434783	0	G|0.969;C|0.031	0.031	strong	.	DNAH14	300	.	NM_001373	exon82	c.G13125C	p.K4375N	TGACAAGGATGAG	.	PASS	Atlas-SNP
TNK2	10188	hgsc.bcm.edu	37	3	195594950	195594950	+	Missense_Mutation	SNP	G	G	A	rs56260729	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	25	61	0	0.543478	0	G|0.858;A|0.142	0.142	strong	.	TNK2	246	.	NM_001010938	exon13	c.C2408T	p.P803L	GGGGCCGGGGAGC	.	PASS	Atlas-SNP
NLGN2	57555	hgsc.bcm.edu	37	17	7318935	7318935	+	Silent	SNP	C	C	T	rs12947017	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	221	185	1	0.991031	0.00540541	C|0.720;T|0.280	0.280	strong	.	NLGN2	61	.	NM_020795	exon6	c.C1143T	p.G381G	CATCGGCGTCAAC	.	PASS	Atlas-SNP
ANKRD12	23253	hgsc.bcm.edu	37	18	9258537	9258537	+	Missense_Mutation	SNP	T	T	C	rs3744822	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	23	70	0	0.522727	0	T|0.923;C|0.077	0.077	strong	.	ANKRD12	167	.	NM_015208	exon9	c.T5272C	p.S1758P	CTATTATCAGAAA	.	PASS	Atlas-SNP
CDCA2	157313	hgsc.bcm.edu	37	8	25364960	25364960	+	Silent	SNP	A	A	G	rs6990278	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	25	61	0	0.431034	0	A|0.800;G|0.200	0.200	strong	.	CDCA2	78	.	NM_152562	exon15	c.A2778G	p.T926T	ATGTACATTTGAC	.	PASS	Atlas-SNP
MON1B	22879	hgsc.bcm.edu	37	16	77228971	77228971	+	Silent	SNP	C	C	T	rs2232506	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	28	38	0	0.54902	0	C|0.912;T|0.088	0.088	strong	.	MON1B	55	.	NM_014940	exon4	c.C1215T	p.V405V	GGCTGTCGGGGCG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506410	195506410	+	Missense_Mutation	SNP	G	G	A	rs79037473	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	25	174	0	0.641026	0	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C12041T	p.A4014V	GGGGTGGCGTGAC	.	scavenged	Atlas-SNP
DYRK1A	1859	hgsc.bcm.edu	37	21	38884589	38884589	+	Missense_Mutation	SNP	C	C	T	rs201554841		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	81	148	0	0.457627	0	C|0.999;T|0.001	0.001	weak	DYRK1A,NS,malignant_melanoma,0,1	DYRK1A	85	1	NM_001396	exon11	c.C2047T	p.R683C	CAGAATCGCCCAG	.	PASS	Atlas-SNP
NUP210	23225	hgsc.bcm.edu	37	3	13399786	13399786	+	Missense_Mutation	SNP	G	G	A	rs6795271	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	114	155	0	0.535211	0	G|0.734;A|0.266	0.266	strong	.	NUP210	182	.	NM_024923	exon16	c.C2264T	p.A755V	ACAGGCGCGAGGG	.	PASS	Atlas-SNP
CNTN3	5067	hgsc.bcm.edu	37	3	74413676	74413676	+	Silent	SNP	T	T	C	rs6549590	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	150	120	0	0.993378	0	T|0.536;C|0.464	0.464	strong	.	CNTN3	174	.	NM_020872	exon9	c.A1155G	p.Q385Q	TATGCATTGGAAC	.	PASS	Atlas-SNP
FCGR3A	2214	hgsc.bcm.edu	37	1	161514542	161514542	+	Missense_Mutation	SNP	A	A	C	rs396991	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	339	336	280	1	0.99115	0.00357143	A|0.681;C|0.319	0.319	strong	.	FCGR3A	38	.	NM_000569	exon4	c.T634G	p.F212V	TCCCAAAAAGCCC	.	PASS	Atlas-SNP
RHOBTB3	22836	hgsc.bcm.edu	37	5	95084131	95084131	+	Silent	SNP	G	G	A	rs34896	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	57	136	0	0.419118	0	A|0.416;C|0.001	0.416	strong	.	RHOBTB3	43	.	NM_014899	exon4	c.G510A	p.A170A	AGGAGCGACCTAT	.	PASS	Atlas-SNP
SNX19	399979	hgsc.bcm.edu	37	11	130776524	130776524	+	Missense_Mutation	SNP	T	T	C	rs4414223	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	98	105	0	1	0	T|0.378;C|0.622	0.622	strong	.	SNX19	84	.	NM_014758	exon6	c.A2258G	p.N753S	ACCACATTGCCTT	.	PASS	Atlas-SNP
TTC27	55622	hgsc.bcm.edu	37	2	32983526	32983526	+	Silent	SNP	C	C	T	rs2273665	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	56	135	0	0.5	0	C|0.676;N|0.000	.	strong	TTC27,NS,carcinoma,0,1	TTC27	71	1	NM_017735	exon13	c.C1620T	p.N540N	TCGGAACAAGGAG	.	PASS	Atlas-SNP
CIITA	4261	hgsc.bcm.edu	37	16	11016045	11016045	+	Silent	SNP	C	C	T	rs2229322	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	64	105	0	0.484848	0	C|0.893;T|0.107	0.107	strong	CIITA,NS,carcinoma,0,1	CIITA	92	1	NM_000246	exon17	c.C3171T	p.C1057C	CATCTGCGACGTG	.	PASS	Atlas-SNP
ZNF354A	6940	hgsc.bcm.edu	37	5	178139379	178139379	+	Silent	SNP	C	C	G	rs201342253		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	7	188	0	0.0555556	0	C|0.999;G|0.001	0.001	weak	.	ZNF354A	74	.	NM_005649	exon5	c.G1500C	p.G500G	TGTTTTCCCACAC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228475848	228475848	+	Missense_Mutation	SNP	G	G	A	rs437129	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	222	93	177	0	0.418919	0	G|0.702;A|0.298	0.298	strong	.	OBSCN	2142	.	NM_001271223	exon42	c.G11185A	p.A3729T	AGCAAGGCAGCCC	.	PASS	Atlas-SNP
ZNF638	27332	hgsc.bcm.edu	37	2	71633389	71633389	+	Silent	SNP	C	C	T	rs6714975	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	47	95	0	0.353383	0	C|0.545;T|0.455	0.455	strong	.	ZNF638	179	.	NM_014497	exon19	c.C3132T	p.N1044N	TAGAAACAAGGTA	.	PASS	Atlas-SNP
LOXL4	84171	hgsc.bcm.edu	37	10	100017453	100017453	+	Missense_Mutation	SNP	T	T	G	rs1983864	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	60	117	0	0.472441	0	T|0.706;G|0.294	0.294	strong	.	LOXL4	60	.	NM_032211	exon8	c.A1214C	p.D405A	GCAGCATCATTCT	.	PASS	Atlas-SNP
KCNH5	27133	hgsc.bcm.edu	37	14	63175013	63175013	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	68	159	0	0.42236	0	.	.	none	KCNH5,NS,carcinoma,0,1	KCNH5	320	1	NM_139318	exon11	c.G2180A	p.G727D	GGGTCACCCTGTG	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4511575	4511575	+	Silent	SNP	C	C	G	rs62115185	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	305	42	420	7	0.137705	0.0166667	C|0.978;G|0.022	0.022	strong	PLIN4_ENST00000301286,caecum,carcinoma,0,2	PLIN4	191	2	NM_001080400	exon3	c.G2355C	p.V785V	ACTGCACACAGCA	.	scavenged	Atlas-SNP
RBM5	10181	hgsc.bcm.edu	37	3	50144951	50144951	+	Silent	SNP	T	T	C	rs1061474	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	222	107	190	0	0.481982	0	T|0.327;C|0.673	0.673	strong	.	RBM5	76	.	NM_005778	exon12	c.T990C	p.A330A	CAGCGCTTTCTCT	.	PASS	Atlas-SNP
C8orf47	203111	hgsc.bcm.edu	37	8	99101976	99101976	+	Missense_Mutation	SNP	A	A	C	rs35368005	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	52	104	0	0.440678	0	A|0.987;C|0.013	0.013	strong	.	C8orf47	34	.	NM_173549	exon2	c.A731C	p.Q244P	AGCAGCAACTTCA	.	PASS	Atlas-SNP
C8G	733	hgsc.bcm.edu	37	9	139839904	139839904	+	Silent	SNP	T	T	G	rs2071006	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	45	91	0	0.424528	0	T|0.438;G|0.562	0.562	strong	.	C8G	9	.	NM_000606	exon1	c.T132G	p.A44A	TGATGCTCAGCAG	.	PASS	Atlas-SNP
LHX9	56956	hgsc.bcm.edu	37	1	197896728	197896728	+	Silent	SNP	T	T	C	rs12046958	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	92	171	0	0.476684	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
RAI1	10743	hgsc.bcm.edu	37	17	17697102	17697102	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	8	90	0	0.0941176	0	.	.	none	RAI1,colon,carcinoma,0,3	RAI1	121	3	NM_030665	exon3	c.G840A	p.Q280Q	GCAGCAGCAGCAG	.	PASS	Atlas-SNP
SDC1	6382	hgsc.bcm.edu	37	2	20403949	20403949	+	Silent	SNP	C	C	T	rs2230924	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25	11	33	0	0.44	0	T|0.225;G|0.000;C|0.775	0.225	strong	.	SDC1	32	.	NM_002997	exon3	c.G252A	p.E84E	TGTAGCCTCCAGG	.	PASS	Atlas-SNP
DISC1	27185	hgsc.bcm.edu	37	1	231954101	231954101	+	Missense_Mutation	SNP	C	C	T	rs6675281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	40	105	0	0.43956	0	C|0.877;T|0.123	0.123	strong	.	DISC1	207	.	NM_001164537	exon10	c.C1915T	p.L639F	AAAGACCTCACCG	.	PASS	Atlas-SNP
RGAG1	57529	hgsc.bcm.edu	37	X	109694685	109694685	+	Silent	SNP	T	T	A	rs2073787	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	141	233	1	1	0.00429185	T|0.511;0|0.003	.	strong	.	RGAG1	168	.	NM_020769	exon3	c.T840A	p.G280G	TGGAGGTACATCA	.	PASS	Atlas-SNP
ITIH5	80760	hgsc.bcm.edu	37	10	7621771	7621771	+	Silent	SNP	A	A	G	rs17431370	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	78	100	0	1	0	A|0.807;G|0.193	0.193	strong	.	ITIH5	343	.	NM_001001851	exon9	c.T1365C	p.C455C	GAGGCCACAGTTC	.	PASS	Atlas-SNP
SMARCA4	6597	hgsc.bcm.edu	37	19	11145752	11145752	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	28	174	0	0.171779	0	.	.	none	.	SMARCA4	502	.	NM_003072	exon29	c.C4114T	p.R1372C	GGCTCCCGCCACC	.	PASS	Atlas-SNP
ZNF275	10838	hgsc.bcm.edu	37	X	152610985	152610985	+	Silent	SNP	T	T	C	rs3213466	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	57	88	0	0.982759	0	0|0.006;C|0.479	0.479	strong	.	ZNF275	44	.	NM_001080485	exon3	c.T39C	p.P13P	CGTTCCTGTTTTA	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62191558	62191558	+	Silent	SNP	G	G	A	rs3810479	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	25	43	0	0.555556	0	G|0.863;A|0.137	0.137	strong	.	.	.	.	NM_001037335	exon18	c.C7623T	p.A2541A	CACCCCGGCGATG	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29821475	29821475	+	Silent	SNP	G	G	A	rs41284748	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	58	115	0	0.446154	0	G|0.928;A|0.072	0.072	strong	.	SVIL	226	.	NM_021738	exon8	c.C1821T	p.A607A	CCTGCAGGCGTTG	.	PASS	Atlas-SNP
CNDP2	55748	hgsc.bcm.edu	37	18	72178161	72178161	+	Silent	SNP	T	T	C	rs2278159	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	64	143	0	0.633663	0	T|0.825;C|0.175	0.175	strong	CNDP2,NS,carcinoma,0,1	CNDP2	55	1	NM_018235	exon6	c.T570C	p.Y190Y	GGACTATGTCTGC	.	PASS	Atlas-SNP
CAND2	23066	hgsc.bcm.edu	37	3	12875443	12875443	+	Missense_Mutation	SNP	G	G	A	rs12629133	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	58	55	0	0.58	0	A|0.499;C|0.000;G|0.500;T|0.000	0.499	strong	.	CAND2	138	.	NM_001162499	exon15	c.G3673A	p.A1225T	GATTCCGCTTCAG	.	PASS	Atlas-SNP
IVL	3713	hgsc.bcm.edu	37	1	152882979	152882979	+	Missense_Mutation	SNP	C	C	T	rs17855670	by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	37	91	2	0.237179	0.021978	C|0.943;T|0.057	0.057	strong	IVL,colon,carcinoma,0,2	IVL	100	2	NM_005547	exon2	c.C706T	p.P236S	GAGCTCCCACAGC	.	scavenged	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8159409	8159409	+	Silent	SNP	G	G	T	rs7245552	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	37	77	0	0.5	0	G|0.395;T|0.605	0.605	strong	FBN3,NS,carcinoma,0,1	FBN3	300	1	NM_032447	exon46	c.C5826A	p.P1942P	AGTGCCGGGTAGG	.	PASS	Atlas-SNP
SLC28A2	9153	hgsc.bcm.edu	37	15	45561551	45561551	+	Missense_Mutation	SNP	C	C	T	rs17222057	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	82	219	0	0.367713	0	C|0.996;T|0.004	0.004	strong	.	SLC28A2	64	.	NM_004212	exon14	c.C1384T	p.L462F	TCCTATCTCCTAA	.	PASS	Atlas-SNP
IFI16	3428	hgsc.bcm.edu	37	1	159002377	159002377	+	Missense_Mutation	SNP	C	C	A	rs1057027	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	70	139	0	0.402299	0	C|0.328;A|0.672	0.672	strong	.	IFI16	111	.	NM_005531	exon7	c.C1225A	p.R409S	GAACAGCGTCAGC	.	PASS	Atlas-SNP
KRTAP29-1	100533177	hgsc.bcm.edu	37	17	39458765	39458765	+	Silent	SNP	A	A	G	rs1005197	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	106	77	0	1	0	A|0.331;G|0.669	0.669	strong	.	KRTAP29-1	2	.	NM_001257309	exon1	c.T339C	p.S113S	ACAAGTAGATTCC	.	PASS	Atlas-SNP
FAM214B	80256	hgsc.bcm.edu	37	9	35107765	35107765	+	Silent	SNP	C	C	A	rs13287211	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	40	82	0	0.43956	0	C|0.718;A|0.282	0.282	strong	.	.	.	.	NM_025182	exon3	c.G507T	p.G169G	CAGGGACCCCTGT	.	PASS	Atlas-SNP
SLC28A1	9154	hgsc.bcm.edu	37	15	85447431	85447431	+	Missense_Mutation	SNP	G	G	A	rs2290272	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	85	130	0	0.574324	0	G|0.674;A|0.326	0.326	strong	SLC28A1,NS,carcinoma,0,1	SLC28A1	118	1	NM_004213	exon7	c.G565A	p.V189I	GTGTTCGTCGCTC	.	PASS	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	37	7	101917521	101917521	+	Missense_Mutation	SNP	G	G	A	rs803064	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	30	72	0	0.461538	0	G|0.431;A|0.569	0.569	strong	.	CUX1	253	.	NM_001913	exon16	c.G1390A	p.A464T	GGTGCCGCTGAGC	.	PASS	Atlas-SNP
USP10	9100	hgsc.bcm.edu	37	16	84778762	84778762	+	Silent	SNP	C	C	T	rs4553618	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	95	153	0	0.579268	0	C|0.779;T|0.221	0.221	strong	.	USP10	51	.	NM_001272075	exon5	c.C687T	p.D229D	GCCTGACAGTCCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	99	126	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
SALL1	6299	hgsc.bcm.edu	37	16	51173559	51173559	+	Silent	SNP	G	G	A	rs56627294		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	160	149	0	0.981595	0	.	.	weak	SALL1,NS,carcinoma,0,1	SALL1	301	1	NM_002968	exon2	c.C2574T	p.L858L	CATCTCGAGGGGC	.	PASS	Atlas-SNP
DSE	29940	hgsc.bcm.edu	37	6	116720487	116720487	+	Missense_Mutation	SNP	C	C	T	rs41352449	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	33	82	0	0.347368	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
PGBD1	84547	hgsc.bcm.edu	37	6	28268824	28268824	+	Missense_Mutation	SNP	A	A	G	rs33932084	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	47	82	0	0.489583	0	A|0.939;G|0.061	0.061	strong	.	PGBD1	106	.	NM_001184743	exon7	c.A1193G	p.N398S	AACCCAATTTTCC	.	PASS	Atlas-SNP
MAMLD1	10046	hgsc.bcm.edu	37	X	149638920	149638920	+	Missense_Mutation	SNP	C	C	T	rs41313406	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	76	115	0	1	0	C|0.927;T|0.073	0.073	strong	.	MAMLD1	263	.	NM_005491	exon3	c.C1075T	p.P359S	CCACCCCCATTCA	.	PASS	Atlas-SNP
IGSF10	285313	hgsc.bcm.edu	37	3	151155620	151155620	+	Silent	SNP	G	G	A	rs6781302	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	80	66	0	1	0	G|0.352;A|0.648	0.648	strong	.	IGSF10	279	.	NM_178822	exon6	c.C6729T	p.N2243N	AGTTCTGTTTGTA	.	PASS	Atlas-SNP
HMHA1	23526	hgsc.bcm.edu	37	19	1079959	1079959	+	Missense_Mutation	SNP	G	G	A	rs36084354	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	42	63	0	0.646154	0	G|0.948;A|0.052	0.052	strong	HMHA1,NS,carcinoma,0,2	HMHA1	78	2	NM_001258328	exon13	c.G1593A	p.M531I	GCATATGCAGACG	.	PASS	Atlas-SNP
OR4K1	79544	hgsc.bcm.edu	37	14	20404735	20404735	+	Missense_Mutation	SNP	C	C	T	rs34394400	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	24	42	0	0.533333	0	C|0.733;T|0.267	0.267	strong	.	OR4K1	108	.	NM_001004063	exon1	c.C910T	p.R304C	AGAAACCGTCATG	.	PASS	Atlas-SNP
GNL1	2794	hgsc.bcm.edu	37	6	30515043	30515043	+	Silent	SNP	T	T	C	rs3130247	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	69	122	0	0.394286	0	T|0.939;C|0.061	0.061	strong	.	GNL1	47	.	NM_005275	exon10	c.A1287G	p.A429A	GATCCCTGCCAGA	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	37	1	7890024	7890024	+	Missense_Mutation	SNP	T	T	G	rs201662971	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	19	278	2	0.180952	0.00719424	.	.	weak	PER3,NS,carcinoma,0,3	PER3	95	3	NM_016831	exon18	c.T2990G	p.M997R	CTCCCATGAAGAA	.	scavenged	Atlas-SNP
ESPNL	339768	hgsc.bcm.edu	37	2	239038912	239038912	+	Silent	SNP	T	T	C	rs57813708	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	81	166	0	0.457627	0	T|0.748;C|0.252	0.252	strong	.	ESPNL	63	.	NM_194312	exon9	c.T1557C	p.L519L	GCAGCTTCGGCGC	.	PASS	Atlas-SNP
ZNF174	7727	hgsc.bcm.edu	37	16	3454480	3454480	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	52	142	0	0.429752	0	.	.	none	.	ZNF174	32	.	NM_001032292	exon2	c.C457T	p.L153F	TCTCAGCTTGGAG	.	PASS	Atlas-SNP
FKBP6	8468	hgsc.bcm.edu	37	7	72754645	72754645	+	Silent	SNP	G	G	A	rs56301507	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	44	85	0	0.5	0	G|0.937;A|0.063	0.063	strong	.	FKBP6	35	.	NM_003602	exon6	c.G594A	p.L198L	GGCCCTGTTGCTT	.	PASS	Atlas-SNP
GPR139	124274	hgsc.bcm.edu	37	16	20043330	20043330	+	Silent	SNP	T	T	C	rs2147865	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	79	166	0	0.461988	0	T|0.549;C|0.451	0.451	strong	.	GPR139	75	.	NM_001002911	exon2	c.A789G	p.V263V	GATGTGTACCAGC	.	PASS	Atlas-SNP
PAPL	0	hgsc.bcm.edu	37	19	39589189	39589189	+	Silent	SNP	C	C	T	rs55878600	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	25	38	0	0.510204	0	C|0.796;T|0.204	0.204	strong	.	.	.	.	NM_001004318	exon3	c.C213T	p.P71P	CCTGCCCCTCCGC	.	PASS	Atlas-SNP
ASTN2	23245	hgsc.bcm.edu	37	9	119491277	119491277	+	Missense_Mutation	SNP	C	C	T	rs72765708	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	38	72	0	0.447059	0	C|0.925;T|0.075	0.075	strong	.	ASTN2	307	.	NM_014010	exon14	c.G2467A	p.A823T	CTGCTGCGAGGGT	.	PASS	Atlas-SNP
ADH7	131	hgsc.bcm.edu	37	4	100349669	100349669	+	Missense_Mutation	SNP	C	C	G	rs1573496	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	59	107	0	0.513043	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
ADCK4	79934	hgsc.bcm.edu	37	19	41209477	41209477	+	Silent	SNP	C	C	T	rs11538385	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	60	101	0	0.465116	0	C|0.773;T|0.227	0.227	strong	ADCK4_ENST00000324464,colon,carcinoma,-1,6	ADCK4	92	6	NM_024876	exon9	c.G768A	p.A256A	GAGTACCGCCAGC	.	PASS	Atlas-SNP
CCDC79	283847	hgsc.bcm.edu	37	16	66792714	66792714	+	Missense_Mutation	SNP	T	T	C	rs363156	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	12	56	0	0.292683	0	T|0.651;C|0.349	0.349	strong	.	CCDC79	32	.	NM_001136505	exon18	c.A1958G	p.Q653R	AGTCGTTGTCTTC	.	PASS	Atlas-SNP
FAM184B	27146	hgsc.bcm.edu	37	4	17636638	17636638	+	Silent	SNP	G	G	C	rs61745212	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	36	66	0	0.571429	0	G|0.960;C|0.040	0.040	strong	.	FAM184B	38	.	NM_015688	exon16	c.C2883G	p.S961S	CTTCATGGAAGGG	.	PASS	Atlas-SNP
NUP210	23225	hgsc.bcm.edu	37	3	13368892	13368892	+	Silent	SNP	G	G	A	rs2271509	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	82	147	0	0.518987	0	G|0.541;A|0.459	0.459	strong	NUP210,NS,carcinoma,0,2	NUP210	182	2	NM_024923	exon32	c.C4332T	p.C1444C	GACAACGCAGGTG	.	PASS	Atlas-SNP
PDK1	5163	hgsc.bcm.edu	37	2	173460640	173460640	+	Silent	SNP	T	T	C	rs12693005	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	96	201	0	0.475248	0	T|0.907;C|0.093	0.093	strong	.	PDK1	39	.	NM_002610	exon11	c.T1254C	p.D418D	GGCTGATGACTGG	.	PASS	Atlas-SNP
C10orf118	55088	hgsc.bcm.edu	37	10	115922492	115922492	+	Missense_Mutation	SNP	C	C	T	rs12782946	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	88	159	0	0.526946	0	C|0.948;T|0.052	0.052	strong	.	C10orf118	70	.	NM_018017	exon2	c.G536A	p.R179Q	GGTACTCGATGTT	.	PASS	Atlas-SNP
CD163	9332	hgsc.bcm.edu	37	12	7649653	7649653	+	Silent	SNP	T	T	C	rs4883264	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	96	105	1	1	0.00952381	T|0.460;C|0.540	0.540	strong	.	CD163	221	.	NM_203416	exon5	c.A855G	p.G285G	CCATTCTCCTTGG	.	PASS	Atlas-SNP
EIF3F	8665	hgsc.bcm.edu	37	11	8009241	8009241	+	Silent	SNP	C	C	T	rs12421289	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	52	142	0	0.452174	0	C|0.889;T|0.111	0.111	strong	.	EIF3F	23	.	NM_003754	exon1	c.C342T	p.A114A	TGCTGCCCGAGTT	.	PASS	Atlas-SNP
C1orf101	257044	hgsc.bcm.edu	37	1	244735858	244735858	+	Silent	SNP	A	A	G	rs10927267	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	78	115	0	0.527027	0	A|0.783;G|0.217	0.217	strong	C1orf101_ENST00000366534,NS,carcinoma,0,2	C1orf101	158	2	NM_173807	exon11	c.A1734G	p.T578T	TTTCACAACAAAA	.	PASS	Atlas-SNP
SPEF2	79925	hgsc.bcm.edu	37	5	35759812	35759812	+	Missense_Mutation	SNP	G	G	T	rs201517270	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	76	129	0	0.510067	0	G|0.999;T|0.001	0.001	strong	.	SPEF2	324	.	NM_024867	exon25	c.G3611T	p.S1204I	CTGAAAGCCAGCT	.	PASS	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	37	1	111957517	111957517	+	Missense_Mutation	SNP	T	T	C	rs3767609	bycluster;byfrequency;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	64	95	0	0.969697	0	T|0.776;C|0.224	0.224	strong	.	OVGP1	177	.	NM_002557	exon11	c.A1606G	p.S536G	GATGACTCACAGG	.	PASS	Atlas-SNP
CD101	9398	hgsc.bcm.edu	37	1	117560929	117560929	+	Silent	SNP	C	C	A	rs3736907	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	129	153	0	1	0	C|0.812;N|0.000	.	strong	.	CD101	95	.	NM_001256109	exon6	c.C1764A	p.I588I	TCACATCTTCCAC	.	PASS	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50534350	50534350	+	Missense_Mutation	SNP	G	G	A	rs11101095	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	17	45	0	0.485714	0	G|0.909;A|0.091	0.091	strong	C10orf71_ENST00000374144,NS,carcinoma,0,1	C10orf71	179	1	NM_001135196	exon3	c.G3760A	p.V1254I	GAGCCTGTCGGGA	.	PASS	Atlas-SNP
EVA1C	59271	hgsc.bcm.edu	37	21	33887131	33887131	+	Silent	SNP	G	G	A	rs1129157	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	50	78	0	0.574713	0	G|0.575;A|0.425	0.425	strong	.	.	.	.	NM_058187	exon8	c.G957A	p.P319P	CCACCCGGAGAGA	.	PASS	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	37	1	42047208	42047208	+	Missense_Mutation	SNP	C	C	G	rs17363472	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	91	166	0	0.602649	0	C|0.961;G|0.039	0.039	strong	.	HIVEP3	235	.	NM_024503	exon4	c.G3261C	p.Q1087H	GGAAATCTGGGAC	.	PASS	Atlas-SNP
CES1	1066	hgsc.bcm.edu	37	16	55862791	55862791	+	Missense_Mutation	SNP	T	T	C	rs3826193	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	22	129	0	0.174603	0	.	.	weak	.	CES1	78	.	NM_001025195	exon2	c.A148G	p.I50V	GGAAAATGGCCAC	.	PASS	Atlas-SNP
RBMXL1	494115	hgsc.bcm.edu	37	1	89449383	89449383	+	Missense_Mutation	SNP	G	G	A	rs71216132		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	432	67	483	2	0.155093	0.00414079	G|0.500;A|0.500	0.500	weak	CCBL2,NS,carcinoma,0,1	.	.	1	NM_001162536	exon3	c.C127T	p.R43C	TTTCACGGTCTTT	.	scavenged	Atlas-SNP
ZNF284	342909	hgsc.bcm.edu	37	19	44590558	44590558	+	Silent	SNP	C	C	T	rs7255701	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	73	70	0	1	0	C|0.510;T|0.490	0.490	strong	.	ZNF284	38	.	NM_001037813	exon5	c.C927T	p.H309H	GGTCCACATGCAA	.	PASS	Atlas-SNP
ZNF91	7644	hgsc.bcm.edu	37	19	23543078	23543078	+	Silent	SNP	C	C	T	rs117657695	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	27	36	0	0.435484	0	C|0.995;T|0.005	0.005	strong	.	ZNF91	349	.	NM_003430	exon4	c.G2703A	p.K901K	AATTCTCTTATGT	.	PASS	Atlas-SNP
ZNF211	10520	hgsc.bcm.edu	37	19	58153000	58153000	+	Silent	SNP	T	T	C	rs3746218	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	34	65	0	0.566667	0	T|0.792;C|0.208	0.208	strong	.	ZNF211	78	.	NM_001265597	exon5	c.T1341C	p.F447F	AAACTTTAGCCTG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549531	32549531	+	Missense_Mutation	SNP	T	T	C	rs112796209	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	557	78	310	0	0.140036	0	T|0.921;C|0.079	0.079	strong	.	HLA-DRB1	41	.	NM_002124	exon3	c.A455G	p.Y152C	CCTGGATAGAAAC	.	PASS	Atlas-SNP
SULT1A2	6799	hgsc.bcm.edu	37	16	28603655	28603655	+	Missense_Mutation	SNP	T	T	G	rs1059491	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	382	177	402	2	0.463351	0.00497512	T|0.705;G|0.295	0.295	strong	SULT1A2,lymph_node,lymphoid_neoplasm,0,1	SULT1A2	27	1	NM_001054	exon7	c.A704C	p.N235T	ATAGGGTTCTTCT	.	scavenged	Atlas-SNP
EVC	2121	hgsc.bcm.edu	37	4	5800494	5800494	+	Missense_Mutation	SNP	G	G	A	rs2279252	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	259	138	232	1	0.532819	0.00431034	G|0.980;A|0.020	0.020	strong	EVC,right_upper_lobe,carcinoma,-1,1	EVC	90	1	NM_153717	exon15	c.G2279A	p.R760Q	AGAGCCGGGCCAA	.	PASS	Atlas-SNP
RPUSD2	27079	hgsc.bcm.edu	37	15	40862064	40862064	+	Silent	SNP	C	C	T	rs1058734	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	24	56	0	0.571429	0	C|0.669;T|0.331	0.331	strong	.	RPUSD2	28	.	NM_152260	exon1	c.C528T	p.A176A	CCTGGCCTACTAT	.	PASS	Atlas-SNP
TNFRSF18	8784	hgsc.bcm.edu	37	1	1140871	1140871	+	Silent	SNP	G	G	A	rs142770542	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	71	139	0	0.537879	0	G|0.998;A|0.002	0.002	strong	.	TNFRSF18	13	.	NM_148902	exon2	c.C189T	p.G63G	CTCCTCGCCTGGG	.	PASS	Atlas-SNP
MMP8	4317	hgsc.bcm.edu	37	11	102584135	102584135	+	Nonsense_Mutation	SNP	G	G	A	rs35231465	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	40	79	0	0.444444	0	G|0.985;A|0.015	0.015	strong	.	MMP8	68	.	NM_002424	exon10	c.C1348T	p.Q450X	CTCTCTGAGCAAT	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26732987	26732987	+	Silent	SNP	G	G	A	rs2230376	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	42	60	0	0.976744	0	G|0.794;A|0.206	0.206	strong	.	ITPR2	270	.	NM_002223	exon33	c.C4482T	p.P1494P	TGAAAAGGGAGAA	.	PASS	Atlas-SNP
HBP1	26959	hgsc.bcm.edu	37	7	106826381	106826381	+	Silent	SNP	C	C	T	rs7794598	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	53	111	0	0.509615	0	C|0.818;T|0.182	0.182	strong	.	HBP1	31	.	NM_001244262	exon4	c.C564T	p.H188H	AAGACACGAAAGG	.	PASS	Atlas-SNP
CACNA1A	773	hgsc.bcm.edu	37	19	13470522	13470522	+	Silent	SNP	T	T	C	rs16006	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	111	202	0	0.5311	0	T|0.909;C|0.089	0.089	strong	.	CACNA1A	715	.	NM_001127221	exon6	c.A876G	p.E292E	GGGCCCTTCCCAG	.	PASS	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	37	6	90397132	90397132	+	Missense_Mutation	SNP	G	G	C	rs34766278	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	30	82	0	0.37037	0	G|0.889;C|0.111	0.111	strong	.	MDN1	478	.	NM_014611	exon68	c.C11381G	p.A3794G	GACAAAGCTCGAC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	103	93	0	1	0	G|0.611;A|0.389	0.389	strong	.	PRRC2A	152	.	NM_004638	exon22	c.G5219A	p.R1740H	CACAGCGTACAGA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9086819	9086819	+	Silent	SNP	G	G	A	rs1823056	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	108	155	0	0.516746	0	G|0.811;A|0.189	0.189	strong	.	MUC16	4315	.	NM_024690	exon1	c.C4996T	p.L1666L	TTTCCAGTGCCAT	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13701525	13701525	+	Silent	SNP	T	T	C	rs3734111	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	78	106	0	0.666667	0	T|0.537;C|0.463	0.463	strong	.	DNAH5	868	.	NM_001369	exon77	c.A13359G	p.T4453T	ACCCAGTGTACTA	.	PASS	Atlas-SNP
ZFP36	7538	hgsc.bcm.edu	37	19	39899177	39899177	+	Silent	SNP	T	T	C	rs17885410	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	65	109	0	0.560345	0	T|0.975;C|0.025	0.025	strong	.	ZFP36	19	.	NM_003407	exon2	c.T837C	p.S279S	CCCCTCTGTACAG	.	PASS	Atlas-SNP
CLEC4F	165530	hgsc.bcm.edu	37	2	71044211	71044211	+	Missense_Mutation	SNP	C	C	T	rs2075221	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	34	56	0	0.507463	0	C|0.692;T|0.308	0.308	strong	CLEC4F,caecum,carcinoma,-1,1	CLEC4F	95	1	NM_173535	exon4	c.G302A	p.R101Q	AGCTCTCGCATTT	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25043207	25043207	+	Silent	SNP	G	G	A	rs116339023	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	6	108	1	0.04	0.00925926	G|0.975;A|0.026	0.026	strong	PARP4,colon,carcinoma,0,1	PARP4	142	1	NM_006437	exon17	c.C2088T	p.A696A	GGTCACGGCTTCT	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509622	195509622	+	Silent	SNP	G	G	C	rs199744021	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	481	36	174	2	0.0748441	0.0114943	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C8829G	p.T2943T	AAGAGGGGTGGTG	.	scavenged	Atlas-SNP
CASD1	64921	hgsc.bcm.edu	37	7	94173803	94173803	+	Silent	SNP	T	T	C	rs13242090	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	279	141	240	0	0.505376	0	T|0.913;C|0.087	0.087	strong	.	CASD1	70	.	NM_022900	exon11	c.T1437C	p.F479F	ATACTTTTGGATA	.	PASS	Atlas-SNP
SRRM5	100170229	hgsc.bcm.edu	37	19	44117582	44117582	+	Missense_Mutation	SNP	T	T	C	rs10410000	bycluster;by2hit2allele;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	49	119	0	0.471154	0	C|1.000;|0.000	1.000	weak	SRRM5,colon,carcinoma,0,3	SRRM5	38	3	NM_001145641	exon1	c.T1309C	p.C437R	AGAGATTGCAGCC	.	PASS	Atlas-SNP
OR4D6	219983	hgsc.bcm.edu	37	11	59224885	59224885	+	Missense_Mutation	SNP	G	G	C	rs1453542	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	102	164	0	0.5	0	G|0.782;C|0.218	0.218	strong	.	OR4D6	65	.	NM_001004708	exon1	c.G452C	p.S151T	GGGTGAGTGGTGG	.	PASS	Atlas-SNP
CCNT1	904	hgsc.bcm.edu	37	12	49087656	49087656	+	Silent	SNP	G	G	C	rs3013	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	122	102	0	1	0	G|0.788;C|0.212	0.212	strong	.	CCNT1	55	.	NM_001240	exon9	c.C1341G	p.P447P	CCGCTCGGGGTTT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	73	116	0	0.561538	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
ELF3	1999	hgsc.bcm.edu	37	1	201981862	201981862	+	Silent	SNP	T	T	C	rs2819362	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	55	97	0	0.458333	0	T|0.353;C|0.647	0.647	strong	.	ELF3	92	.	NM_001114309	exon5	c.T573C	p.P191P	CTCCCCTGGCAGC	.	PASS	Atlas-SNP
NEO1	4756	hgsc.bcm.edu	37	15	73541513	73541513	+	Silent	SNP	A	A	G	rs3736510	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	45	78	0	0.542169	0	A|0.621;G|0.379	0.379	strong	.	NEO1	102	.	NM_001172623	exon10	c.A1719G	p.K573K	TTATAAATTGTAC	.	PASS	Atlas-SNP
NOS1	4842	hgsc.bcm.edu	37	12	117685270	117685270	+	Silent	SNP	G	G	A	rs1047735	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	77	158	0	0.487342	0	G|0.652;A|0.348	0.348	strong	.	NOS1	240	.	NM_001204218	exon19	c.C2808T	p.H936H	CACAGCGTGTCCG	.	PASS	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	37	4	88536917	88536917	+	Missense_Mutation	SNP	G	G	A	rs199901845	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	282	54	306	0	0.191489	0	.	.	weak	DSPP,NS,carcinoma,-2,3	DSPP	174	3	NM_014208	exon5	c.G3103A	p.D1035N	AGCAGCGATAGCA	.	PASS	Atlas-SNP
CNBP	7555	hgsc.bcm.edu	37	3	128890350	128890350	+	Silent	SNP	G	G	A	rs4303883	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	157	157	164	0	1	0	G|0.213;A|0.787	0.787	strong	.	CNBP	12	.	NM_003418	exon3	c.C156T	p.D52D	ACAAATGTCTGGA	.	PASS	Atlas-SNP
KRTAP12-2	353323	hgsc.bcm.edu	37	21	46086457	46086457	+	Missense_Mutation	SNP	G	G	A	rs12483730	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	381	184	324	1	0.48294	0.00308642	G|0.846;A|0.154	0.154	strong	.	KRTAP12-2	10	.	NM_181684	exon1	c.C347T	p.A116V	GGAGCCGCATACA	.	PASS	Atlas-SNP
CHIA	27159	hgsc.bcm.edu	37	1	111861974	111861974	+	Missense_Mutation	SNP	T	T	C	rs2275254	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	121	151	0	0.98374	0	T|0.537;C|0.463	0.463	strong	.	CHIA	115	.	NM_201653	exon11	c.T1061C	p.F354S	ACAAATTTGGAGG	.	PASS	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	37	16	51173912	51173912	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	3	161	0	0.0198676	0	.	.	none	SALL1,NS,carcinoma,0,2	SALL1	301	2	NM_002968	exon2	c.C2221T	p.R741W	AAGCCCGGCCACA	.	scavenged	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144995494	144995494	+	Missense_Mutation	SNP	C	C	T	rs76803079		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	43	74	0	0.5375	0	.	.	weak	.	PLEC	1144	.	NM_201380	exon32	c.G8906A	p.R2969H	TAGCCGCGCCGGT	.	PASS	Atlas-SNP
MYO5A	4644	hgsc.bcm.edu	37	15	52667552	52667552	+	Silent	SNP	G	G	A	rs2414145	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	109	127	0	1	0	G|0.127;A|0.873	0.873	strong	.	MYO5A	145	.	NM_000259	exon20	c.C2526T	p.I842I	AAGAACGATAGTG	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29783885	29783885	+	Silent	SNP	A	A	G	rs1056782	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	78	267	0	0.4	0	A|0.589;G|0.411	0.411	strong	.	SVIL	226	.	NM_021738	exon20	c.T3799C	p.L1267L	TGTCCAACTTCAG	.	PASS	Atlas-SNP
NHLRC2	374354	hgsc.bcm.edu	37	10	115644040	115644040	+	Missense_Mutation	SNP	G	G	A	rs7913176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	47	113	0	0.398305	0	G|0.771;A|0.229	0.229	strong	NHLRC2,NS,carcinoma,0,1	NHLRC2	56	1	NM_198514	exon5	c.G940A	p.V314I	AGCACTGTAGCTG	.	PASS	Atlas-SNP
SP2	6668	hgsc.bcm.edu	37	17	46000406	46000406	+	Missense_Mutation	SNP	T	T	C	rs62067380	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	58	103	0	0.504348	0	T|0.895;C|0.105	0.105	strong	.	SP2	38	.	NM_003110	exon4	c.T1138C	p.S380P	GCCACCTCTAACA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	43	151	0	0.248555	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
TTN	7273	hgsc.bcm.edu	37	2	179613651	179613651	+	Silent	SNP	G	G	A	rs72648904	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	47	83	0	0.47	0	G|0.977;A|0.023	0.023	strong	.	TTN	18412	.	NM_133379	exon46	c.C13476T	p.D4492D	GGCTTTGTCATCA	.	PASS	Atlas-SNP
BTBD16	118663	hgsc.bcm.edu	37	10	124096061	124096061	+	Missense_Mutation	SNP	A	A	C	rs1048347	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	53	101	0	0.430894	0	A|0.608;C|0.392	0.392	strong	.	BTBD16	44	.	NM_144587	exon15	c.A1316C	p.H439P	ACAACCACGTCAG	.	PASS	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	37	9	710818	710818	+	Missense_Mutation	SNP	A	A	G	rs61737970	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	60	120	0	0.6	0	A|0.989;G|0.011	0.011	strong	.	KANK1	231	.	NM_001256876	exon7	c.A52G	p.I18V	GGTGATATTCTCA	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8168545	8168545	+	Missense_Mutation	SNP	C	C	T	rs33967815	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	99	185	0	0.55618	0	C|0.769;T|0.231	0.231	strong	.	FBN3	300	.	NM_032447	exon38	c.G4840A	p.G1614S	AGATGCCGGAGTG	.	PASS	Atlas-SNP
USP21	27005	hgsc.bcm.edu	37	1	161132821	161132821	+	Missense_Mutation	SNP	C	C	A	rs1127525	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	103	152	0	0.581921	0	C|0.972;A|0.028	0.028	strong	.	USP21	63	.	NM_012475	exon6	c.C1006A	p.P336T	CCCTCTCCACCCC	.	PASS	Atlas-SNP
LINGO1	84894	hgsc.bcm.edu	37	15	77907145	77907145	+	Silent	SNP	G	G	A	rs3743481	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	113	138	1	0.991228	0.00724638	G|0.496;A|0.504	0.504	strong	LINGO1,rectum,carcinoma,0,1	LINGO1	76	1	NM_032808	exon2	c.C1104T	p.S368S	CGGGTTGGAGTCC	.	PASS	Atlas-SNP
IL22RA2	116379	hgsc.bcm.edu	37	6	137482840	137482840	+	Missense_Mutation	SNP	A	A	G	rs28385692	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	36	133	0	0.346154	0	A|0.974;G|0.026	0.026	strong	IL22RA2,NS,malignant_melanoma,-1,1	IL22RA2	17	1	NM_181309	exon2	c.T47C	p.L16P	CCAGTAAGGAAGA	.	PASS	Atlas-SNP
NGF	4803	hgsc.bcm.edu	37	1	115829313	115829313	+	Missense_Mutation	SNP	G	G	A	rs6330	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	69	129	0	0.605263	0	G|0.664;A|0.336	0.336	strong	.	NGF	43	.	NM_002506	exon3	c.C104T	p.A35V	CAGTGGGCTTGGG	.	PASS	Atlas-SNP
SBSN	374897	hgsc.bcm.edu	37	19	36017928	36017928	+	Missense_Mutation	SNP	G	G	C	rs10775583	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	16	15	0	1	0	G|0.577;C|0.423	0.423	strong	.	SBSN	58	.	NM_001166034	exon1	c.C1256G	p.A419G	TGCCCCGCCTCCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	72	164	1	0.421053	0.00609756	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
CDH3	1001	hgsc.bcm.edu	37	16	68721470	68721470	+	Silent	SNP	T	T	C	rs2296405	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	168	146	0	0.982456	0	T|0.373;G|0.004	.	strong	.	CDH3	68	.	NM_001793	exon12	c.T1626C	p.N542N	TGTCAATGACCAT	.	PASS	Atlas-SNP
EXOSC3	51010	hgsc.bcm.edu	37	9	37782111	37782111	+	Silent	SNP	C	C	T	rs7158	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	61	141	0	0.491935	0	C|0.471;T|0.529	0.529	strong	.	EXOSC3	8	.	NM_016042	exon3	c.G498A	p.Q166Q	CACAAACTGGCCA	.	PASS	Atlas-SNP
ZNF404	342908	hgsc.bcm.edu	37	19	44377669	44377669	+	Missense_Mutation	SNP	G	G	A	rs12977303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	45	118	0	0.412844	0	G|0.588;A|0.412	0.412	strong	.	ZNF404	46	.	NM_001033719	exon2	c.C688T	p.H230Y	TCTGATGTTCTGT	.	PASS	Atlas-SNP
PLAC4	191585	hgsc.bcm.edu	37	21	42551270	42551270	+	Missense_Mutation	SNP	A	A	G	rs199893430		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	283	21	244	0	0.0742049	0	.	.	weak	.	.	.	.	NM_182832	exon1	c.T286C	p.Y96H	GAGGGTATCCAGG	.	PASS	Atlas-SNP
ZNF222	7673	hgsc.bcm.edu	37	19	44535999	44535999	+	Missense_Mutation	SNP	G	G	T	rs7258517	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	112	277	0	0.449799	0	G|0.510;T|0.490	0.490	strong	.	ZNF222	90	.	NM_001129996	exon4	c.G292T	p.V98F	GAGACTGTTCCAG	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36841756	36841756	+	Silent	SNP	T	T	C	rs1534967	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	44	75	0	0.44898	0	T|0.603;C|0.397	0.397	strong	KIAA1755,NS,carcinoma,0,1	KIAA1755	145	1	NM_001029864	exon14	c.A3291G	p.S1097S	GCCCAGTGAGTCT	.	PASS	Atlas-SNP
BAZ2B	29994	hgsc.bcm.edu	37	2	160182302	160182302	+	Missense_Mutation	SNP	C	C	T	rs415793	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	104	238	0	0.472727	0	T|0.249;G|0.012	0.249	strong	.	BAZ2B	196	.	NM_013450	exon35	c.G6071A	p.S2024N	AGTGAACTACTTG	.	PASS	Atlas-SNP
IP6K3	117283	hgsc.bcm.edu	37	6	33690796	33690796	+	Missense_Mutation	SNP	C	C	T	rs4713668	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	75	154	0	0.40107	0	C|0.610;T|0.390	0.390	strong	.	IP6K3	52	.	NM_001142883	exon7	c.G934A	p.V312I	TAATGACAGAGAG	.	PASS	Atlas-SNP
HSD17B1	3292	hgsc.bcm.edu	37	17	40706596	40706596	+	Missense_Mutation	SNP	C	C	T	rs147402365	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	16	29	0	0.444444	0	C|0.996;T|0.004	0.004	strong	.	HSD17B1	24	.	NM_000413	exon5	c.C713T	p.A238V	AGGTGGCGGAGGT	.	PASS	Atlas-SNP
PIEZO2	63895	hgsc.bcm.edu	37	18	10681711	10681711	+	Missense_Mutation	SNP	C	C	T	rs3748428	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	35	121	0	0.37234	0	C|0.882;T|0.118	0.118	strong	.	.	.	.	NM_022068	exon47	c.G7387A	p.V2463I	CCATAACTTTCAA	.	PASS	Atlas-SNP
LAMB1	3912	hgsc.bcm.edu	37	7	107591763	107591763	+	Missense_Mutation	SNP	G	G	A	rs145485632	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	54	104	0	0.465517	0	G|0.999;A|0.001	0.001	strong	.	LAMB1	185	.	NM_002291	exon24	c.C3299T	p.T1100M	TGCCCCGTGAACT	.	PASS	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	37	15	79057989	79057989	+	Missense_Mutation	SNP	C	C	T	rs200769684	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	7	246	0	0.0416667	0	C|0.999;T|0.001	0.001	weak	ADAMTS7,face,carcinoma,0,3	ADAMTS7	142	3	NM_014272	exon19	c.G4264A	p.E1422K	TTGCCTCGCTCCA	.	scavenged	Atlas-SNP
CHST15	51363	hgsc.bcm.edu	37	10	125780759	125780759	+	Missense_Mutation	SNP	G	G	C	rs4072194	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	71	53	0	0.946667	0	G|0.996;A|0.004	.	strong	.	CHST15	134	.	NM_014863	exon6	c.C1360G	p.P454A	GGGGGGGGGGGGT	.	PASS	Atlas-SNP
DLK2	65989	hgsc.bcm.edu	37	6	43418528	43418528	+	Missense_Mutation	SNP	C	C	T	rs35192247	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	101	229	0	0.353147	0	C|0.967;T|0.033	0.033	strong	.	DLK2	22	.	NM_023932	exon6	c.G901A	p.G301R	CTAGCCCAGCCTC	.	PASS	Atlas-SNP
C7orf57	136288	hgsc.bcm.edu	37	7	48086151	48086151	+	Missense_Mutation	SNP	G	G	A	rs111480809	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	43	75	0	0.472527	0	G|0.989;A|0.011	0.011	strong	C7orf57_ENST00000348904,colon,carcinoma,0,2	C7orf57	59	2	NM_001100159	exon5	c.G445A	p.D149N	CCCTTCGACTTCG	.	PASS	Atlas-SNP
ZNF142	7701	hgsc.bcm.edu	37	2	219508263	219508263	+	Silent	SNP	G	G	T	rs3770212	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	316	161	315	0	0.509494	0	G|0.931;T|0.069	0.069	strong	.	ZNF142	190	.	NM_001105537	exon8	c.C2976A	p.P992P	CTCCGTGGGTGAG	.	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	37	13	113510230	113510230	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	2	136	0	0.0144928	0	.	.	none	ATP11A_ENST00000375630,lower_third,carcinoma,+1,2	ATP11A	225	2	NM_032189	exon20	c.C2249T	p.S750L	GACTTTCAGCAGA	.	scavenged	Atlas-SNP
LRBA	987	hgsc.bcm.edu	37	4	151793903	151793903	+	Missense_Mutation	SNP	T	T	C	rs72719663	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	78	157	0	0.453488	0	T|0.983;C|0.017	0.017	strong	.	LRBA	253	.	NM_006726	exon18	c.A2170G	p.I724V	TGTAGATAACACT	.	PASS	Atlas-SNP
ZBTB4	57659	hgsc.bcm.edu	37	17	7366651	7366651	+	Missense_Mutation	SNP	C	C	G	rs871990	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	53	122	0	0.392593	0	C|0.861;G|0.139	0.139	strong	.	ZBTB4	163	.	NM_001128833	exon4	c.G1650C	p.M550I	GGTGGCCATGGCT	.	PASS	Atlas-SNP
OR10G4	390264	hgsc.bcm.edu	37	11	123886307	123886307	+	Missense_Mutation	SNP	C	C	T	rs79057843	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	290	172	369	1	0.593103	0.00271003	C|0.622;T|0.378	0.378	strong	OR10G4,NS,carcinoma,0,1	OR10G4	77	1	NM_001004462	exon1	c.C26T	p.A9V	TGACAGCATTCAT	.	PASS	Atlas-SNP
CCDC7	221016	hgsc.bcm.edu	37	10	32745248	32745248	+	Missense_Mutation	SNP	A	A	C	rs56391924	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	51	119	0	0.476636	0	A|0.920;C|0.080	0.080	strong	.	CCDC7	47	.	NM_145023	exon4	c.A442C	p.K148Q	GCACTTAAAGAAG	.	PASS	Atlas-SNP
PFAS	5198	hgsc.bcm.edu	37	17	8166458	8166458	+	Missense_Mutation	SNP	T	T	A	rs35217368	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	38	124	0	0.469136	0	T|0.955;A|0.045	0.045	strong	.	PFAS	91	.	NM_012393	exon13	c.T1442A	p.F481Y	TGGACTTTGGGGC	.	PASS	Atlas-SNP
ZNF846	162993	hgsc.bcm.edu	37	19	9868404	9868404	+	Missense_Mutation	SNP	C	C	T	rs10414485	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	99	196	1	0.521053	0.00510204	C|0.749;T|0.251	0.251	strong	.	ZNF846	61	.	NM_001077624	exon6	c.G1349A	p.C450Y	CATTCACAGGCCT	.	PASS	Atlas-SNP
MOV10L1	54456	hgsc.bcm.edu	37	22	50530501	50530501	+	Missense_Mutation	SNP	A	A	T	rs9617066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	125	190	1	0.634518	0.00526316	A|0.776;T|0.224	0.224	strong	MOV10L1,NS,carcinoma,0,1	MOV10L1	238	1	NM_018995	exon2	c.A169T	p.M57L	GATGATATGATCT	.	PASS	Atlas-SNP
TOE1	114034	hgsc.bcm.edu	37	1	45808863	45808863	+	Missense_Mutation	SNP	G	G	A	rs9429157	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	25	87	0	0.324675	0	G|0.981;A|0.019	0.019	strong	.	TOE1	27	.	NM_025077	exon8	c.G1022A	p.R341H	GACGACGTAGGGA	.	PASS	Atlas-SNP
ANGPT2	285	hgsc.bcm.edu	37	8	6378763	6378763	+	Silent	SNP	C	C	T	rs3020221	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	177	175	0	1	0	C|0.666;T|0.334	0.334	strong	ANGPT2_ENST00000325203,NS,carcinoma,-2,2	ANGPT2	126	2	NM_001118887	exon4	c.G735A	p.Q245Q	CTGCTTCTGAAGA	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32489792	32489792	+	Missense_Mutation	SNP	G	G	T	rs41562816	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	56	46	0	0.835821	0	G|0.928;T|0.072	0.072	strong	.	HLA-DRB5	31	.	NM_002125	exon2	c.C260A	p.A87D	TACTCAGCGTCAG	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859816	144859816	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	409	26	309	0	0.0635697	0	.	.	none	.	PDE4DIP	817	.	NM_014644	exon38	c.A6268G	p.I2090V	GGTTAATGGAGGA	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239622	31239622	+	Missense_Mutation	SNP	C	C	G	rs9264668	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	12	79	0	0.157895	0	A|0.575;C|0.423;G|0.002	0.002	strong	HLA-C_ENST00000383329,NS,neuroblastoma,0,2	HLA-C	92	2	NM_002117	exon2	c.G97C	p.D33H	CGGTGTCGAAATA	.	scavenged	Atlas-SNP
PAH	5053	hgsc.bcm.edu	37	12	103288554	103288554	+	Missense_Mutation	SNP	G	G	T	rs62642929	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	49	96	0	0.398374	0	.	.	weak	.	PAH	77	.	NM_000277	exon3	c.C311A	p.A104D	ACAGTGGCACCAA	.	PASS	Atlas-SNP
RASSF6	166824	hgsc.bcm.edu	37	4	74451073	74451073	+	Missense_Mutation	SNP	A	A	G	rs12507775	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	73	125	0	0.52518	0	A|0.733;G|0.267	0.267	strong	.	RASSF6	68	.	NM_201431	exon6	c.T487C	p.S163P	GATAAGATAAATA	.	PASS	Atlas-SNP
SLCO4A1	28231	hgsc.bcm.edu	37	20	61288355	61288355	+	Silent	SNP	G	G	T	rs3195701	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	37	85	0	0.627119	0	G|0.820;T|0.180	0.180	strong	SLCO4A1,caecum,carcinoma,0,1	SLCO4A1	65	1	NM_016354	exon2	c.G549T	p.G183G	CACGGGGTCGCTG	.	PASS	Atlas-SNP
ABCF3	55324	hgsc.bcm.edu	37	3	183904049	183904049	+	Silent	SNP	A	A	G	rs11539876	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	71	142	0	0.44375	0	A|0.835;G|0.165	0.165	strong	.	ABCF3	72	.	NM_018358	exon1	c.A54G	p.Q18Q	CGGACAAGTCTTC	.	PASS	Atlas-SNP
TMEM143	55260	hgsc.bcm.edu	37	19	48863386	48863386	+	Silent	SNP	C	C	T	rs438767	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	41	79	0	0.506173	0	C|0.462;T|0.538	0.538	strong	TMEM143,NS,carcinoma,0,1	TMEM143	29	1	NM_018273	exon3	c.G312A	p.S104S	GTGGGCCGAGAAC	.	PASS	Atlas-SNP
EXPH5	23086	hgsc.bcm.edu	37	11	108381247	108381247	+	Missense_Mutation	SNP	C	C	T	rs2640779	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	119	229	0	0.479839	0	C|0.760;T|0.240	0.240	strong	EXPH5,NS,adenoma,0,2	EXPH5	193	2	NM_015065	exon6	c.G4987A	p.G1663R	GCTTTCCGTTCTC	.	PASS	Atlas-SNP
BICD1	636	hgsc.bcm.edu	37	12	32480886	32480886	+	Silent	SNP	T	T	C	rs12369637	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	69	165	0	0.396552	0	T|0.987;C|0.013	0.013	strong	.	BICD1	89	.	NM_001714	exon5	c.T1497C	p.S499S	TCACAGTACCCTT	.	PASS	Atlas-SNP
RANBP9	10048	hgsc.bcm.edu	37	6	13711279	13711279	+	Silent	SNP	A	A	G	rs6905991	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	119	74	0	0.991667	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
C6orf15	29113	hgsc.bcm.edu	37	6	31079350	31079350	+	Silent	SNP	T	T	C	rs146335336	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	63	147	0	0.342391	0	T|0.998;C|0.002	0.002	strong	.	C6orf15	29	.	NM_014070	exon2	c.A786G	p.G262G	AATATTTCCCCAG	.	PASS	Atlas-SNP
IRAK1BP1	134728	hgsc.bcm.edu	37	6	79595097	79595097	+	Silent	SNP	A	A	G	rs6908105	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	96	209	0	0.623377	0	A|0.684;G|0.316	0.316	strong	.	IRAK1BP1	18	.	NM_001010844	exon2	c.A318G	p.A106A	TCAGGCAGAAAAT	.	PASS	Atlas-SNP
KCNQ4	9132	hgsc.bcm.edu	37	1	41296828	41296828	+	Missense_Mutation	SNP	T	T	G	rs34287852	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	260	142	260	0	0.546154	0	T|0.858;G|0.142	0.142	strong	.	KCNQ4	58	.	NM_004700	exon10	c.T1365G	p.H455Q	GCAGCATCTGGCA	.	PASS	Atlas-SNP
ALDH8A1	64577	hgsc.bcm.edu	37	6	135263557	135263557	+	Silent	SNP	C	C	A	rs3813342	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	36	55	0	0.610169	0	C|0.916;A|0.084	0.084	strong	ALDH8A1,right_upper_lobe,carcinoma,-2,1	ALDH8A1	68	1	NM_022568	exon3	c.G432T	p.P144P	TCCCACCGGGGCC	.	PASS	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	37	8	68993014	68993014	+	Silent	SNP	T	T	C	rs12680555	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	201	218	0	1	0	T|0.502;C|0.498	0.498	strong	.	PREX2	614	.	NM_025170	exon17	c.T1819C	p.L607L	TTTGGATTAGAAG	.	PASS	Atlas-SNP
CUL9	23113	hgsc.bcm.edu	37	6	43154017	43154017	+	Missense_Mutation	SNP	C	C	G	rs150188923	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	56	97	0	0.459016	0	C|0.995;G|0.005	0.005	strong	.	CUL9	248	.	NM_015089	exon4	c.C1075G	p.Q359E	AGAAGACAAGGGT	.	PASS	Atlas-SNP
DPF3	8110	hgsc.bcm.edu	37	14	73220020	73220020	+	Silent	SNP	A	A	G	rs3742836	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	36	43	0	0.5625	0	A|0.773;G|0.227	0.227	strong	.	DPF3	117	.	NM_012074	exon3	c.T253C	p.L85L	GGTGCAATCGTCT	.	PASS	Atlas-SNP
TBC1D1	23216	hgsc.bcm.edu	37	4	38023302	38023302	+	Silent	SNP	C	C	G	rs34119528	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	37	68	0	0.406593	0	C|0.867;G|0.133	0.133	strong	.	TBC1D1	94	.	NM_015173	exon6	c.C1173G	p.P391P	CTGCCCCCTGCAA	.	PASS	Atlas-SNP
TSHR	7253	hgsc.bcm.edu	37	14	81558919	81558919	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	26	152	0	0.129353	0	.	.	none	TSHR_ENST00000554435,NS,carcinoma,+1,2	TSHR	462	2	NM_000369	exon6	c.C512G	p.A171G	TGAATGCTTTTCA	.	PASS	Atlas-SNP
PSMD12	5718	hgsc.bcm.edu	37	17	65362552	65362552	+	Silent	SNP	T	T	A	rs11079691	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	36	81	0	0.571429	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
IGFN1	91156	hgsc.bcm.edu	37	1	201183402	201183402	+	Silent	SNP	T	T	C	rs1568810	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	103	63	0	0.980952	0	T|0.698;C|0.302	0.302	strong	.	IGFN1	220	.	NM_001164586	exon13	c.T8826C	p.P2942P	GGGACCTGGCACC	.	PASS	Atlas-SNP
MAOA	4128	hgsc.bcm.edu	37	X	43603391	43603391	+	Silent	SNP	T	T	C	rs1137070	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	102	169	0	0.990291	0	0|0.014;C|0.615	0.615	strong	.	MAOA	48	.	NM_000240	exon14	c.T1410C	p.D470D	GAAAGATATCTGG	.	PASS	Atlas-SNP
GNAT2	2780	hgsc.bcm.edu	37	1	110148974	110148974	+	Silent	SNP	C	C	T	rs1799875	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	176	216	0	0.98324	0	C|0.630;T|0.370	0.370	strong	.	GNAT2	31	.	NM_005272	exon5	c.G546A	p.T182T	GATGCCCGTGGTT	.	PASS	Atlas-SNP
ZSCAN5B	342933	hgsc.bcm.edu	37	19	56703248	56703248	+	Missense_Mutation	SNP	G	G	A	rs527025	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	67	115	0	0.603604	0	G|0.725;A|0.275	0.275	strong	.	ZSCAN5B	160	.	NM_001080456	exon2	c.C559T	p.P187S	CCCTGGGCAGGAT	.	PASS	Atlas-SNP
ALKBH7	84266	hgsc.bcm.edu	37	19	6374890	6374890	+	Missense_Mutation	SNP	G	G	A	rs7540	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	93	84	0	1	0	G|0.943;A|0.057	0.057	strong	.	ALKBH7	18	.	NM_032306	exon4	c.G572A	p.R191Q	AACGCCGGATTCC	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17275018	17275018	+	Missense_Mutation	SNP	C	C	A	rs114863724	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	39	60	0	0.661017	0	C|0.981;A|0.019	0.019	strong	.	CROCC	185	.	NM_014675	exon18	c.C2707A	p.R903S	CGCCTGCGGTAAG	.	PASS	Atlas-SNP
AFAP1	60312	hgsc.bcm.edu	37	4	7802292	7802292	+	Silent	SNP	G	G	A	rs11728778	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	89	185	0	0.470899	0	G|0.812;A|0.188	0.188	strong	.	AFAP1	93	.	NM_001134647	exon10	c.C1143T	p.T381T	CAGGTCGGTCCTG	.	PASS	Atlas-SNP
NPBWR2	2832	hgsc.bcm.edu	37	20	62737318	62737318	+	Silent	SNP	G	G	A	rs13036542	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	40	67	0	0.506329	0	G|0.545;A|0.455	0.455	strong	.	NPBWR2	36	.	NM_005286	exon1	c.C867T	p.P289P	GGTCTGGGGCAGG	.	PASS	Atlas-SNP
CIDEB	27141	hgsc.bcm.edu	37	14	24775287	24775287	+	Silent	SNP	G	G	A	rs139893717	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	28	70	0	0.451613	0	G|0.995;A|0.005	0.005	strong	.	CIDEB	17	.	NM_014430	exon6	c.C393T	p.I131I	TCGGGCGATGTCC	.	PASS	Atlas-SNP
KCNH5	27133	hgsc.bcm.edu	37	14	63174960	63174960	+	Missense_Mutation	SNP	C	C	T	rs4902176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	71	130	0	0.435583	0	C|0.730;T|0.270	0.270	strong	.	KCNH5	320	.	NM_139318	exon11	c.G2233A	p.A745T	TGGAGGCTCCATT	.	PASS	Atlas-SNP
TRIM54	57159	hgsc.bcm.edu	37	2	27521506	27521506	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	25	137	0	0.131579	0	.	.	none	.	TRIM54	35	.	NM_187841	exon2	c.G240A	p.S80S	CCCATCGTGCAGG	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81232294	81232294	+	Missense_Mutation	SNP	T	T	C	rs61734110	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	60	102	0	0.594059	0	T|0.956;C|0.044	0.044	strong	.	PKD1L2	361	.	NM_001076780	exon7	c.A1516G	p.I506V	GGCAAATCCCAAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195489067	195489067	+	Silent	SNP	C	C	G	rs2246980	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	91	79	1	1	0.0126582	C|0.619;G|0.381	0.381	strong	MUC4_ENST00000463781,colon,carcinoma,0,3	MUC4	1505	3	NM_018406	exon14	c.G14403C	p.S4801S	GCTGGCCGAGACC	.	scavenged	Atlas-SNP
CNTNAP3	79937	hgsc.bcm.edu	37	9	39085764	39085764	+	Silent	SNP	G	G	A	rs2150942	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	145	819	0	0.97973	0	.	.	weak	CNTNAP3,NS,carcinoma,-1,1	CNTNAP3	82	1	NM_033655	exon21	c.C3411T	p.A1137A	TTTGACGGCGTTG	.	scavenged	Atlas-SNP
GABRA4	2557	hgsc.bcm.edu	37	4	46995366	46995366	+	Missense_Mutation	SNP	G	G	T	rs2229940	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	84	160	0	0.47191	0	G|0.672;T|0.328	0.328	strong	GABRA4,NS,carcinoma,0,1	GABRA4	129	1	NM_000809	exon1	c.C76A	p.L26M	CCGCCAGGCACAG	.	PASS	Atlas-SNP
ASCL3	56676	hgsc.bcm.edu	37	11	8959455	8959455	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	2	69	0	0.0168067	0	.	.	none	ASCL3,NS,carcinoma,+1,1	ASCL3	19	1	NM_020646	exon2	c.G254A	p.G85E	TCGCACCCTCTGT	.	scavenged	Atlas-SNP
ANO5	203859	hgsc.bcm.edu	37	11	22271870	22271870	+	Missense_Mutation	SNP	A	A	T	rs7481951	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	127	136	1	1	0.00735294	A|0.607;T|0.393	0.393	strong	.	ANO5	162	.	NM_213599	exon10	c.A966T	p.L322F	TGGCTTAGCTTGT	.	PASS	Atlas-SNP
CYP1B1	1545	hgsc.bcm.edu	37	2	38298150	38298150	+	Silent	SNP	A	A	G	rs1056837	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	139	174	0	0.992857	0	G|0.522;A|0.478	0.522	strong	.	CYP1B1	39	.	NM_000104	exon3	c.T1347C	p.D449D	GAGGCCATCCTTG	.	PASS	Atlas-SNP
ZNF462	58499	hgsc.bcm.edu	37	9	109692820	109692820	+	Silent	SNP	A	A	G	rs139184113	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	67	100	0	0.449664	0	A|0.999;G|0.001	0.001	strong	.	ZNF462	322	.	NM_021224	exon4	c.A5862G	p.L1954L	TCACTTAGAAGAG	.	PASS	Atlas-SNP
DDAH1	23576	hgsc.bcm.edu	37	1	85816134	85816134	+	Silent	SNP	T	T	C	rs2230820	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	113	156	1	0.991228	0.00641026	T|0.860;C|0.140	0.140	strong	.	DDAH1	19	.	NM_012137	exon4	c.A561G	p.A187A	CCCAATTGCGATC	.	PASS	Atlas-SNP
AGBL1	123624	hgsc.bcm.edu	37	15	86807843	86807843	+	Missense_Mutation	SNP	T	T	C	rs11857527	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	34	113	0	0.357895	0	T|0.872;C|0.128	0.128	strong	AGBL1,NS,carcinoma,-1,1	AGBL1	151	1	NM_152336	exon10	c.T1303C	p.S435P	AGTGCCTCCTTTT	.	PASS	Atlas-SNP
MRPL9	65005	hgsc.bcm.edu	37	1	151735913	151735913	+	Missense_Mutation	SNP	G	G	A	rs199630729	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	31	52	0	0.673913	0	.	.	weak	.	MRPL9	21	.	NM_031420	exon1	c.C43T	p.R15W	CCGCCCGCAGCAG	.	PASS	Atlas-SNP
KRT6B	3854	hgsc.bcm.edu	37	12	52844243	52844243	+	Silent	SNP	A	A	G	rs28414881	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	522	100	343	0	0.191571	0	A|0.959;G|0.041	0.041	strong	KRT6B,NS,carcinoma,-1,1	KRT6B	90	1	NM_005555	exon2	c.T702C	p.R234R	GTCCAGACGACCC	.	scavenged	Atlas-SNP
OR6N1	128372	hgsc.bcm.edu	37	1	158735595	158735595	+	Missense_Mutation	SNP	C	C	T	rs857824	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	161	104	0	1	0	C|0.286;T|0.714	0.714	strong	OR6N1,NS,adenoma,0,1	OR6N1	96	1	NM_001005185	exon1	c.G878A	p.R293H	TTGTTGCGCAAGC	.	PASS	Atlas-SNP
OR2C1	4993	hgsc.bcm.edu	37	16	3406838	3406838	+	Missense_Mutation	SNP	G	G	A	rs62000975	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	77	149	0	0.487342	0	G|0.992;A|0.008	0.008	strong	.	OR2C1	38	.	NM_012368	exon1	c.G898A	p.A300T	AAGGGCGCACTGA	.	PASS	Atlas-SNP
KIAA0141	9812	hgsc.bcm.edu	37	5	141309152	141309152	+	Nonsense_Mutation	SNP	C	C	T	rs114623503	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	40	109	0	0.366972	0	C|0.999;T|0.001	0.001	strong	.	KIAA0141	44	.	NM_001142603	exon5	c.C418T	p.R140X	GCACTGCGACAAC	.	PASS	Atlas-SNP
CCRL2	9034	hgsc.bcm.edu	37	3	46449978	46449978	+	Silent	SNP	A	A	C	rs11266744	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	84	156	0	0.461538	0	A|0.645;C|0.355	0.355	strong	.	CCRL2	23	.	NM_001130910	exon2	c.A444C	p.G148G	CAAGGGAAACTTT	.	PASS	Atlas-SNP
NSUN5	55695	hgsc.bcm.edu	37	7	72717933	72717933	+	Silent	SNP	C	C	T	rs61750968	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	237	242	0	0.995798	0	C|0.714;T|0.286	0.286	strong	NSUN5_ENST00000438747,NS,carcinoma,0,2	NSUN5	47	2	NM_148956	exon8	c.G1035A	p.A345A	AGTGAGCGCGTGG	.	PASS	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136291361	136291361	+	Silent	SNP	C	C	T	rs34054981	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	24	79	0	0.387097	0	C|0.942;T|0.058	0.058	strong	.	ADAMTS13	113	.	NM_139026	exon6	c.C582T	p.G194G	GCGGGGCGTCACC	.	PASS	Atlas-SNP
STX17	55014	hgsc.bcm.edu	37	9	102677589	102677589	+	Missense_Mutation	SNP	T	T	C	rs41305451	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	33	55	0	0.407407	0	T|0.945;C|0.055	0.055	strong	.	STX17	17	.	NM_017919	exon2	c.T68C	p.I23T	TTAAGATAGTAAT	.	PASS	Atlas-SNP
FETUB	26998	hgsc.bcm.edu	37	3	186370333	186370333	+	Silent	SNP	G	G	T	rs1131364	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	74	110	0	0.592	0	G|0.402;T|0.598	0.598	strong	.	FETUB	53	.	NM_014375	exon7	c.G1062T	p.V354V	GCTGGTGGTCCTG	.	PASS	Atlas-SNP
SMG6	23293	hgsc.bcm.edu	37	17	2203025	2203025	+	Missense_Mutation	SNP	T	T	G	rs1885987	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	298	146	277	0	0.489933	0	T|0.736;G|0.264	0.264	strong	SMG6,NS,carcinoma,+1,1	SMG6	97	1	NM_017575	exon2	c.A1022C	p.N341T	GCACTGTTTTTCT	.	PASS	Atlas-SNP
KREMEN1	83999	hgsc.bcm.edu	37	22	29533499	29533499	+	Silent	SNP	G	G	A	rs35612970	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	60	98	0	0.550459	0	G|0.861;A|0.139	0.139	strong	.	KREMEN1	46	.	NM_001039570	exon6	c.G801A	p.A267A	CTCGGCGGACATG	.	PASS	Atlas-SNP
KRT71	112802	hgsc.bcm.edu	37	12	52938364	52938364	+	Silent	SNP	T	T	C	rs2292507	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	128	116	0	0.992248	0	T|0.620;C|0.380	0.380	strong	.	KRT71	70	.	NM_033448	exon9	c.A1524G	p.L508L	CTTCCCTAGGGTG	.	PASS	Atlas-SNP
GLP1R	2740	hgsc.bcm.edu	37	6	39041502	39041502	+	Missense_Mutation	SNP	A	A	C	rs1042044	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	179	128	0	1	0	A|0.423;C|0.577;T|0.000	0.577	strong	.	GLP1R	64	.	NM_002062	exon7	c.A780C	p.L260F	GGTCTTATCTGAG	.	PASS	Atlas-SNP
FAM194A	131831	hgsc.bcm.edu	37	3	150421419	150421419	+	Silent	SNP	G	G	A	rs17281287	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	81	89	0	0.532895	0	G|0.601;A|0.399	0.399	strong	FAM194A,NS,adenoma,0,1	FAM194A	91	1	NM_152394	exon1	c.C267T	p.D89D	GAAGTCGTCGTCG	.	PASS	Atlas-SNP
USP36	57602	hgsc.bcm.edu	37	17	76799898	76799898	+	Silent	SNP	A	A	G	rs9302885	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	36	64	1	0.461538	0.015625	A|0.445;G|0.555	0.555	strong	USP36_ENST00000312010,NS,carcinoma,0,2	USP36	243	2	NM_025090	exon16	c.T2379C	p.S793S	TGGAAGAGACACA	.	scavenged	Atlas-SNP
TMPRSS13	84000	hgsc.bcm.edu	37	11	117779305	117779305	+	Missense_Mutation	SNP	C	C	A	rs80264810	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	14	52	0	0.341463	0	C|0.971;A|0.029	0.029	strong	.	TMPRSS13	75	.	NM_001206790	exon9	c.G1304T	p.R435L	GGAGAGCGGGGAG	.	PASS	Atlas-SNP
CNTN3	5067	hgsc.bcm.edu	37	3	74344356	74344356	+	Silent	SNP	T	T	G	rs10490832	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	61	123	0	0.525862	0	T|0.912;G|0.088	0.088	strong	.	CNTN3	174	.	NM_020872	exon18	c.A2433C	p.A811A	GCTATTTGCAGAG	.	PASS	Atlas-SNP
OR2T3	343173	hgsc.bcm.edu	37	1	248637543	248637543	+	Missense_Mutation	SNP	C	C	T	rs74984555	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1264	300	1087	0	0.237342	0	C|0.500;T|0.500	0.500	strong	OR2T3,NS,carcinoma,-2,1	OR2T3	79	1	NM_001005495	exon1	c.C892T	p.R298C	AGTCTCCGCAACA	.	PASS	Atlas-SNP
TRPV1	7442	hgsc.bcm.edu	37	17	3480447	3480447	+	Missense_Mutation	SNP	T	T	C	rs8065080	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	145	109	0	1	0	T|0.625;C|0.375	0.375	strong	.	TRPV1	99	.	NM_018727	exon12	c.A1753G	p.I585V	AGACGATGTAGAC	.	PASS	Atlas-SNP
ZXDC	79364	hgsc.bcm.edu	37	3	126194076	126194076	+	Silent	SNP	T	T	C	rs812367	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	182	192	0	0.994536	0	T|0.442;C|0.558	0.558	strong	.	ZXDC	87	.	NM_025112	exon1	c.A633G	p.P211P	CTCCAGTGGGCAC	.	PASS	Atlas-SNP
GPATCH8	23131	hgsc.bcm.edu	37	17	42475983	42475983	+	Silent	SNP	G	G	C	rs936019	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	66	153	1	0.519685	0.00653595	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	.	scavenged	Atlas-SNP
KLB	152831	hgsc.bcm.edu	37	4	39450229	39450229	+	Missense_Mutation	SNP	C	C	A	rs4975017	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	36	79	0	0.461538	0	C|0.717;A|0.282	0.282	strong	.	KLB	95	.	NM_175737	exon5	c.C3058A	p.Q1020K	CAAAGGCAGAAGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	68	146	0	0.475524	0	C|0.221;N|0.001	0.221	strong	.	MOGAT1	47	.	NM_058165	exon4	c.T487C	p.S163P	CTGGTTTCAGTTT	.	PASS	Atlas-SNP
COL11A1	1301	hgsc.bcm.edu	37	1	103379918	103379918	+	Missense_Mutation	SNP	G	G	A	rs3753841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	109	134	0	0.990909	0	G|0.517;A|0.483	0.483	strong	.	COL11A1	972	.	NM_080629	exon52	c.C4004T	p.P1335L	GGGCCAGGTTCCC	.	PASS	Atlas-SNP
ZNF208	7757	hgsc.bcm.edu	37	19	22156482	22156482	+	Missense_Mutation	SNP	G	G	T	rs12975751	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	26	69	0	0.393939	0	G|0.624;T|0.376	0.376	strong	.	ZNF208	817	.	NM_007153	exon4	c.C1354A	p.P452T	TGTAGGGTGTCTC	.	PASS	Atlas-SNP
ADA	100	hgsc.bcm.edu	37	20	43252915	43252915	+	Silent	SNP	T	T	C	rs244076	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	63	127	0	0.466667	0	T|0.751;C|0.249	0.249	strong	.	ADA	42	.	NM_000022	exon6	c.A534G	p.V178V	AATGGCTACCACG	.	PASS	Atlas-SNP
WDR1	9948	hgsc.bcm.edu	37	4	10099340	10099340	+	Missense_Mutation	SNP	T	T	C	rs13441	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	58	112	0	0.585859	0	T|0.401;C|0.599	0.599	strong	.	WDR1	93	.	NM_017491	exon5	c.A553G	p.I185V	CGCCAATTGTGAA	.	PASS	Atlas-SNP
HRG	3273	hgsc.bcm.edu	37	3	186390627	186390627	+	Missense_Mutation	SNP	C	C	T	rs9898	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	74	105	0	0.532374	0	C|0.544;T|0.456	0.456	strong	HRG,NS,adenoma,0,1	HRG	81	1	NM_000412	exon5	c.C610T	p.P204S	AACTGCCCCAGAC	.	PASS	Atlas-SNP
DOPEY2	9980	hgsc.bcm.edu	37	21	37584331	37584331	+	Silent	SNP	C	C	T	rs147659226	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	49	93	1	0.49	0.0107527	C|0.999;T|0.001	0.001	strong	DOPEY2,NS,carcinoma,+2,1	DOPEY2	184	1	NM_005128	exon7	c.C840T	p.A280A	CTCAGCCGCCACC	.	scavenged	Atlas-SNP
PLG	5340	hgsc.bcm.edu	37	6	161137779	161137779	+	Silent	SNP	T	T	C	rs14224	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	29	81	0	0.329545	0	T|0.540;C|0.460	0.460	strong	.	PLG	150	.	NM_000301	exon7	c.T771C	p.C257C	ACTTTGTGACATC	.	PASS	Atlas-SNP
TRIM49B	283116	hgsc.bcm.edu	37	11	49053390	49053390	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	303	5	284	0	0.0165017	0	.	.	none	TRIM49B,NS,NS,-1,1	TRIM49B	27	1	NM_001206626	exon1	c.T239C	p.V80A	GAAAAGTCAGTCT	.	scavenged	Atlas-SNP
KCTD17	79734	hgsc.bcm.edu	37	22	37458586	37458586	+	Silent	SNP	C	C	T	rs116956945	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	29	95	0	0.358025	0	C|0.965;T|0.035	0.035	strong	KCTD17,NS,carcinoma,0,1	KCTD17	17	1	NM_024681	exon8	c.C846T	p.P282P	GGCACCCGGATGT	.	PASS	Atlas-SNP
LARS	51520	hgsc.bcm.edu	37	5	145499996	145499996	+	Missense_Mutation	SNP	C	C	T	rs10988	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	41	131	0	0.273333	0	C|0.802;N|0.000	.	strong	LARS,NS,carcinoma,0,1	LARS	100	1	NM_020117	exon31	c.G3263A	p.R1088K	CCTTGCCTGATTT	.	PASS	Atlas-SNP
IL37	27178	hgsc.bcm.edu	37	2	113671378	113671378	+	Missense_Mutation	SNP	G	G	T	rs3811046	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	305	299	378	0	0.980328	0	G|0.425;T|0.575	0.575	strong	.	IL37	56	.	NM_014439	exon2	c.G92T	p.G31V	CGGCTGGAAGCCC	.	PASS	Atlas-SNP
TNFSF12	8742	hgsc.bcm.edu	37	17	7453505	7453505	+	Silent	SNP	C	C	A	rs62059804	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	24	65	0	0.428571	0	C|0.800;A|0.200	0.200	strong	.	TNFSF12	20	.	NM_003809	exon3	c.C276A	p.R92R	GCCTCGCAGAAGT	.	PASS	Atlas-SNP
CHGA	1113	hgsc.bcm.edu	37	14	93399101	93399101	+	Missense_Mutation	SNP	C	C	T	rs729940	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	30	63	0	0.666667	0	C|0.876;T|0.124	0.124	strong	.	CHGA	32	.	NM_001275	exon7	c.C1195T	p.R399W	TCCTCCCGGGAGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	10	28	0	0.434783	0	C|0.761;T|0.239	0.239	strong	.	TNS4	72	.	NM_032865	exon6	c.G1493A	p.S498N	GGTCGACTCTGAG	.	PASS	Atlas-SNP
APIP	51074	hgsc.bcm.edu	37	11	34937813	34937813	+	Missense_Mutation	SNP	G	G	A	rs2956114	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	84	67	0	1	0	G|0.630;A|0.370	0.370	strong	.	APIP	21	.	NM_015957	exon1	c.C19T	p.R7W	CCTCCCGAGCATC	.	PASS	Atlas-SNP
FOLH1B	219595	hgsc.bcm.edu	37	11	89413781	89413781	+	Missense_Mutation	SNP	C	C	G	rs10830339	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	67	273	0	0.314554	0	C|0.717;G|0.283	0.283	strong	.	FOLH1B	93	.	NM_153696	exon8	c.C453G	p.N151K	AGGAAACTACACT	.	PASS	Atlas-SNP
ZNF280A	129025	hgsc.bcm.edu	37	22	22868776	22868776	+	Silent	SNP	G	G	A	rs362173	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	279	128	310	2	0.458781	0.00645161	G|0.454;A|0.546	0.546	strong	ZNF280A,NS,adenoma,0,1	ZNF280A	67	1	NM_080740	exon2	c.C1179T	p.P393P	CACGTAGGGCATT	.	scavenged	Atlas-SNP
PADI1	29943	hgsc.bcm.edu	37	1	17555508	17555508	+	Silent	SNP	G	G	T	rs2977234	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	30	89	0	0.375	0	G|0.762;T|0.238	0.238	strong	PADI1,NS,carcinoma,0,1	PADI1	77	1	NM_013358	exon8	c.G891T	p.T297T	CATGACGCCCAAC	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81253917	81253917	+	Missense_Mutation	SNP	A	A	G	rs9924530	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	65	155	0	0.485075	0	A|0.429;G|0.571	0.571	strong	.	PKD1L2	361	.	NM_001076780	exon1	c.T59C	p.V20A	GGCTTAACAGTGG	.	PASS	Atlas-SNP
IL16	3603	hgsc.bcm.edu	37	15	81584925	81584925	+	Silent	SNP	C	C	T	rs61752774	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	43	59	0	0.651515	0	C|0.881;T|0.119	0.119	strong	IL16_ENST00000302987,caecum,carcinoma,0,2	IL16	254	2	NM_001172128	exon12	c.C1449T	p.H483H	TTGGCACGGGCGG	.	PASS	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	37	10	3189380	3189380	+	Silent	SNP	C	C	T	rs3740607	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	65	95	0	0.656566	0	C|0.430;T|0.570	0.570	strong	.	PITRM1	109	.	NM_001242307	exon20	c.G2301A	p.P767P	GATACGCGGGAGC	.	PASS	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32025863	32025863	+	Silent	SNP	C	C	T	rs369637	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	69	143	0	0.489362	0	C|0.927;T|0.073	0.073	strong	.	TNXB	553	.	NM_019105	exon22	c.G7797A	p.L2599L	CGGGCCCAGGCGC	.	PASS	Atlas-SNP
KDM1B	221656	hgsc.bcm.edu	37	6	18208415	18208415	+	Missense_Mutation	SNP	G	G	A	rs72840622	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	86	136	0	0.49711	0	G|0.986;A|0.014	0.014	strong	.	KDM1B	58	.	NM_153042	exon13	c.G1148A	p.G383D	CAGATGGCACAGG	.	PASS	Atlas-SNP
PLEC	5339	hgsc.bcm.edu	37	8	144995736	144995736	+	Silent	SNP	G	G	A	rs11777402	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	69	172	0	0.539062	0	G|0.681;A|0.319	0.319	strong	.	PLEC	1144	.	NM_201380	exon32	c.C8664T	p.N2888N	AGCCTCGTTGACG	.	PASS	Atlas-SNP
CDKN2C	1031	hgsc.bcm.edu	37	1	51439777	51439777	+	Silent	SNP	C	C	T	rs1043141	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	34	104	0	0.435897	0	C|0.933;T|0.067	0.067	strong	.	CDKN2C	24	.	NM_001262	exon3	c.C342T	p.G114G	AGAAGGCCACCTC	.	PASS	Atlas-SNP
SMYD4	114826	hgsc.bcm.edu	37	17	1686737	1686737	+	Missense_Mutation	SNP	C	C	T	rs374639152		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	102	172	0	0.551351	0	.	.	weak	.	SMYD4	50	.	NM_052928	exon9	c.G2054A	p.R685H	GCGTCACGCTGGC	.	PASS	Atlas-SNP
GRHL3	57822	hgsc.bcm.edu	37	1	24668667	24668667	+	Silent	SNP	C	C	G	rs11576645	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	44	151	0	0.392857	0	C|0.832;G|0.168	0.168	strong	.	GRHL3	69	.	NM_021180	exon9	c.C1125G	p.V375V	GGGTGTCCCCCTG	.	PASS	Atlas-SNP
CIAPIN1	57019	hgsc.bcm.edu	37	16	57464236	57464236	+	Silent	SNP	G	G	A	rs170358	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	51	116	0	0.481132	0	G|0.978;A|0.022	0.022	strong	CIAPIN1,colon,carcinoma,-1,1	CIAPIN1	17	1	NM_020313	exon8	c.C762T	p.A254A	TTCTTCGGCAAGG	.	PASS	Atlas-SNP
OR2T35	403244	hgsc.bcm.edu	37	1	248801897	248801897	+	Silent	SNP	G	G	A	rs79303917	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	574	266	304	0	0.463415	0	G|0.895;A|0.105	0.105	strong	OR2T35,NS,carcinoma,0,1	OR2T35	19	1	NM_001001827	exon1	c.C663T	p.I221I	CAGGAGGATGTGC	.	PASS	Atlas-SNP
TOX4	9878	hgsc.bcm.edu	37	14	21960969	21960969	+	Silent	SNP	G	G	A	rs7617	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	106	168	0	0.582418	0	G|0.511;A|0.489	0.489	strong	.	TOX4	50	.	NM_014828	exon7	c.G1194A	p.R398R	CTCCCGGGGGCTC	.	PASS	Atlas-SNP
MAGEA1	4100	hgsc.bcm.edu	37	X	152482917	152482917	+	Missense_Mutation	SNP	T	T	C	rs2008160	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	141	275	1	1	0.00363636	T|0.710;C|0.290	0.290	strong	.	MAGEA1	57	.	NM_004988	exon3	c.A94G	p.T32A	AGGAGGTGGCAGC	.	PASS	Atlas-SNP
TMEM2	23670	hgsc.bcm.edu	37	9	74355028	74355028	+	Silent	SNP	A	A	G	rs25690	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	33	81	0	0.407407	0	A|0.936;G|0.064	0.064	strong	.	TMEM2	112	.	NM_001135820	exon5	c.T1155C	p.T385T	ATCCACAGTATAA	.	PASS	Atlas-SNP
MYEOV	26579	hgsc.bcm.edu	37	11	69063728	69063728	+	Missense_Mutation	SNP	G	G	C	rs11228610	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	46	94	0	0.484211	0	G|0.859;C|0.141	0.141	strong	.	MYEOV	42	.	NM_138768	exon3	c.G811C	p.G271R	CTGGGGGGGTGGC	.	PASS	Atlas-SNP
KPTN	11133	hgsc.bcm.edu	37	19	47980153	47980153	+	Silent	SNP	G	G	A	rs2293424	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	62	97	0	0.607843	0	G|0.633;A|0.367	0.367	strong	.	KPTN	34	.	NM_007059	exon10	c.C906T	p.P302P	ACTGCCGGGCAGG	.	PASS	Atlas-SNP
SLC6A17	388662	hgsc.bcm.edu	37	1	110709720	110709720	+	Missense_Mutation	SNP	G	G	A	rs12737742	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	43	125	0	0.40566	0	A|0.305;C|0.000;G|0.695	0.305	strong	.	SLC6A17	86	.	NM_001010898	exon2	c.G169A	p.A57T	CTGGATGCAGAGG	.	PASS	Atlas-SNP
TTF2	8458	hgsc.bcm.edu	37	1	117617705	117617705	+	Missense_Mutation	SNP	A	A	G	rs998532	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	80	117	0	0.720721	0	A|0.499;G|0.501	0.501	strong	.	TTF2	92	.	NM_003594	exon5	c.A499G	p.K167E	CAAAAGAAAGAAC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911271	29911271	+	Missense_Mutation	SNP	G	G	C	rs3098019	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	367	75	248	0	0.20436	0	C|0.644;G|0.356	0.644	strong	HLA-A,colon,carcinoma,0,1	HLA-A	89	1	NM_001242758	exon3	c.G570C	p.E190D	CGTGGAGTGGCTC	.	PASS	Atlas-SNP
FGFR4	2264	hgsc.bcm.edu	37	5	176516631	176516631	+	Missense_Mutation	SNP	G	G	A	rs1966265	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	85	205	0	0.335968	0	G|0.804;A|0.196	0.196	strong	.	FGFR4	174	.	NM_022963	exon1	c.G28A	p.V10I	TTGGGGGTCCTGC	.	PASS	Atlas-SNP
TLK2	11011	hgsc.bcm.edu	37	17	60650660	60650660	+	Silent	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	395	5	304	0	0.0126582	0	.	.	none	TLK2_ENST00000346027,NS,carcinoma,0,3	TLK2	223	3	NM_006852	exon12	c.T1053C	p.G351G	CATGGGTCAGGCC	.	scavenged	Atlas-SNP
OR51I2	390064	hgsc.bcm.edu	37	11	5474838	5474838	+	Silent	SNP	G	G	T	rs2030094	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	86	98	1	0.988506	0.0102041	G|0.552;T|0.448	0.448	strong	OR51I2,colon,carcinoma,0,1	OR51I2	76	1	NM_001004754	exon1	c.G120T	p.G40G	CCTTGGGGGAAAT	.	scavenged	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196825402	196825402	+	Missense_Mutation	SNP	T	T	C	rs6719500	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	87	159	0	0.483333	0	T|0.836;C|0.164	0.164	strong	DNAH7,NS,carcinoma,+1,1	DNAH7	512	1	NM_018897	exon18	c.A2473G	p.K825E	CTTTTTTTGTCAT	.	PASS	Atlas-SNP
NLRP13	126204	hgsc.bcm.edu	37	19	56424443	56424443	+	Missense_Mutation	SNP	T	T	C	rs303997	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	56	144	0	0.408759	0	C|0.641;N|0.000	0.641	strong	NLRP13,colon,carcinoma,0,2	NLRP13	220	2	NM_176810	exon5	c.A740G	p.Q247R	ATAGCCTGCATTG	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31603770	31603770	+	Silent	SNP	A	A	G	rs11229	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	215	91	177	0	0.423256	0	A|0.841;G|0.159	0.159	strong	.	PRRC2A	152	.	NM_004638	exon25	c.A5568G	p.Q1856Q	CTCTCAATTACAT	.	PASS	Atlas-SNP
FCGR2A	2212	hgsc.bcm.edu	37	1	161487863	161487863	+	Silent	SNP	C	C	T	rs143182858	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	450	138	350	0	0.306667	0	C|0.901;T|0.099	0.099	strong	.	FCGR2A	38	.	NM_001136219	exon7	c.C879T	p.P293P	GAACCCCAGGGCA	.	PASS	Atlas-SNP
MYCBPAP	84073	hgsc.bcm.edu	37	17	48603434	48603434	+	Missense_Mutation	SNP	C	C	T	rs61753813	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	55	98	0	0.518868	0	C|0.974;T|0.026	0.026	strong	.	MYCBPAP	135	.	NM_032133	exon14	c.C2104T	p.R702W	GTGCCCCGGCCTG	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	37	12	114377885	114377885	+	Silent	SNP	G	G	C	rs2290790	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	88	79	0	1	0	G|0.761;C|0.239	0.239	strong	.	RBM19	117	.	NM_001146699	exon15	c.C1818G	p.T606T	GCCGAAGGTCTCC	.	PASS	Atlas-SNP
DOCK5	80005	hgsc.bcm.edu	37	8	25159885	25159885	+	Silent	SNP	G	G	A	rs907157	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	38	60	0	0.535211	0	G|0.698;N|0.000	.	strong	.	DOCK5	167	.	NM_024940	exon10	c.G891A	p.V297V	CCTTGTGTGCCAG	.	PASS	Atlas-SNP
LPHN3	23284	hgsc.bcm.edu	37	4	62845326	62845326	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	435	66	417	0	0.151724	0	.	.	none	.	LPHN3	800	.	NM_015236	exon15	c.G2647A	p.V883I	ACGTGGGTTGGAA	.	PASS	Atlas-SNP
EME1	146956	hgsc.bcm.edu	37	17	48455985	48455985	+	Silent	SNP	A	A	T	rs2189712	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	86	148	0	0.534162	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
COL11A1	1301	hgsc.bcm.edu	37	1	103352451	103352451	+	Silent	SNP	A	A	G	rs2229783	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	201	246	0	1	0	A|0.534;G|0.466	0.466	strong	.	COL11A1	972	.	NM_080629	exon63	c.T4806C	p.I1602I	ATGCTCAATGTCT	.	PASS	Atlas-SNP
MYO15A	51168	hgsc.bcm.edu	37	17	18058521	18058521	+	Silent	SNP	C	C	T	rs712272	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	34	89	0	0.377778	0	C|0.696;T|0.304	0.304	strong	.	MYO15A	268	.	NM_016239	exon45	c.C8322T	p.S2774S	CTTCTCCCGCATC	.	PASS	Atlas-SNP
RTP4	64108	hgsc.bcm.edu	37	3	187089031	187089031	+	Missense_Mutation	SNP	C	C	A	rs1003995	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	44	41	0	1	0	C|0.721;A|0.278	0.278	strong	.	RTP4	20	.	NM_022147	exon2	c.C611A	p.A204D	AGTCAGCTGAGGC	.	PASS	Atlas-SNP
CSMD2	114784	hgsc.bcm.edu	37	1	34038214	34038214	+	Missense_Mutation	SNP	T	T	C	rs2641962	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	74	98	0	1	0	C|0.495;N|0.000	0.495	strong	.	CSMD2	946	.	NM_052896	exon51	c.A7660G	p.M2554V	TGTACATGGCCTT	.	PASS	Atlas-SNP
SLC1A5	6510	hgsc.bcm.edu	37	19	47278859	47278859	+	Missense_Mutation	SNP	C	C	G	rs3027961	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	97	178	0	0.461905	0	C|0.796;G|0.204	0.204	strong	.	SLC1A5	31	.	NM_005628	exon8	c.G1534C	p.V512L	TGGGGACTGGCAG	.	PASS	Atlas-SNP
SERPINA9	327657	hgsc.bcm.edu	37	14	94936062	94936062	+	Missense_Mutation	SNP	G	G	A	rs45438596	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	51	97	0	0.554348	0	G|0.979;A|0.021	0.021	strong	.	SERPINA9	105	.	NM_175739	exon2	c.C170T	p.T57I	GCAGGGGTGCTCT	.	PASS	Atlas-SNP
ZPBP2	124626	hgsc.bcm.edu	37	17	38031674	38031674	+	Silent	SNP	C	C	T	rs10852935	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	45	45	0	1	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
SAMSN1	64092	hgsc.bcm.edu	37	21	15954528	15954528	+	Missense_Mutation	SNP	G	G	A	rs2822785	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	60	124	0	0.535714	0	G|0.692;A|0.307	0.307	strong	.	SAMSN1	112	.	NM_001256370	exon2	c.C190T	p.H64Y	AGCAGTGGTCCCA	.	PASS	Atlas-SNP
TMEM43	79188	hgsc.bcm.edu	37	3	14175262	14175262	+	Missense_Mutation	SNP	T	T	C	rs2340917	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	123	169	0	0.594203	0	T|0.607;C|0.393	0.393	strong	.	TMEM43	33	.	NM_024334	exon7	c.T536C	p.M179T	CATTCATGGCAAC	.	PASS	Atlas-SNP
GTF3C1	2975	hgsc.bcm.edu	37	16	27474910	27474910	+	Missense_Mutation	SNP	A	A	G	rs12919017	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	19	70	0	0.475	0	A|0.904;G|0.096	0.096	strong	.	GTF3C1	210	.	NM_001520	exon35	c.T5876C	p.F1959S	TCTGTGAACCCTG	.	PASS	Atlas-SNP
FAM189A1	23359	hgsc.bcm.edu	37	15	29415560	29415560	+	Silent	SNP	G	G	A	rs3751562	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	64	106	0	0.551724	0	G|0.381;A|0.619	0.619	strong	FAM189A1,NS,carcinoma,0,1	FAM189A1	20	1	NM_015307	exon11	c.C1602T	p.D534D	CAGAACGTCAGCG	.	PASS	Atlas-SNP
FAM209B	388799	hgsc.bcm.edu	37	20	55108418	55108418	+	Silent	SNP	C	C	T	rs73598375		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	135	268	0	0.55102	0	.	.	weak	.	.	.	.	NM_001013646	exon1	c.C21T	p.S7S	ATCGTCCCTGGTC	.	PASS	Atlas-SNP
C5orf45	51149	hgsc.bcm.edu	37	5	179285752	179285752	+	Silent	SNP	G	G	A	rs10060182	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	35	42	0	0.813953	0	G|0.579;A|0.421	0.421	strong	C5orf45,colon,carcinoma,0,1	C5orf45	23	1	NM_016175	exon1	c.C45T	p.C15C	GAGGCGGCAGCTG	.	PASS	Atlas-SNP
PDZRN4	29951	hgsc.bcm.edu	37	12	41967677	41967677	+	Silent	SNP	G	G	A	rs3747556	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	48	88	0	0.421053	0	G|0.870;A|0.130	0.130	strong	.	PDZRN4	346	.	NM_001164595	exon10	c.G3096A	p.S1032S	CTTGTCGGTGACC	.	PASS	Atlas-SNP
SNUPN	10073	hgsc.bcm.edu	37	15	75901899	75901899	+	Missense_Mutation	SNP	C	C	G	rs148983993	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	36	70	0	0.418605	0	C|0.996;G|0.004	0.004	strong	.	SNUPN	26	.	NM_001042581	exon5	c.G502C	p.D168H	AGGTACCTTTTGC	.	PASS	Atlas-SNP
TDRD6	221400	hgsc.bcm.edu	37	6	46656557	46656557	+	Missense_Mutation	SNP	C	C	T	rs41273658	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	36	87	0	0.45	0	C|0.958;T|0.042	0.042	strong	.	TDRD6	205	.	NM_001168359	exon1	c.C692T	p.P231L	GAGTCCCGCTCAA	.	PASS	Atlas-SNP
ABCC5	10057	hgsc.bcm.edu	37	3	183699516	183699516	+	Silent	SNP	T	T	C	rs7636910	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	66	135	0	0.431373	0	T|0.657;C|0.343	0.343	strong	ABCC5,NS,carcinoma,0,1	ABCC5	142	1	NM_005688	exon8	c.A1146G	p.Q382Q	CTCACTTTGAACA	.	PASS	Atlas-SNP
GPR32	2854	hgsc.bcm.edu	37	19	51274851	51274851	+	Missense_Mutation	SNP	A	A	C	rs78840344	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	9	91	1	0.0818182	0.010989	.	.	weak	GPR32,NS,carcinoma,0,5	GPR32	68	5	NM_001506	exon1	c.A994C	p.T332P	TCTTTGACTTCTG	.	scavenged	Atlas-SNP
CA13	377677	hgsc.bcm.edu	37	8	86180719	86180719	+	Missense_Mutation	SNP	A	A	G	rs75353219	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	98	185	0	0.524064	0	A|0.992;G|0.008	0.008	strong	.	CA13	26	.	NM_198584	exon6	c.A532G	p.T178A	CGATTCACAAATT	.	PASS	Atlas-SNP
SLFN13	146857	hgsc.bcm.edu	37	17	33768383	33768383	+	Missense_Mutation	SNP	T	T	A	rs11657183	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	18	58	0	0.375	0	T|0.891;A|0.109	0.109	strong	.	SLFN13	79	.	NM_144682	exon6	c.A1925T	p.D642V	TTTCTATCACTGT	.	PASS	Atlas-SNP
KRTAP10-9	386676	hgsc.bcm.edu	37	21	46047925	46047925	+	Silent	SNP	G	G	T	rs9979457	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	105	220	0	0.549738	0	G|0.347;T|0.653	0.653	strong	.	KRTAP10-9	24	.	NM_198690	exon1	c.G837T	p.P279P	CCGCCCGGCCTGC	.	PASS	Atlas-SNP
KIAA1614	57710	hgsc.bcm.edu	37	1	180905694	180905694	+	Silent	SNP	C	C	T	rs3795503	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	69	124	0	0.485915	0	C|0.696;T|0.304	0.304	strong	.	KIAA1614	75	.	NM_020950	exon5	c.C2649T	p.N883N	CAACAACAGCGCA	.	PASS	Atlas-SNP
NAT2	10	hgsc.bcm.edu	37	8	18257854	18257854	+	Missense_Mutation	SNP	T	T	C	rs1801280	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	58	125	0	0.442748	0	T|0.652;C|0.348	0.348	strong	.	NAT2	34	.	NM_000015	exon2	c.T341C	p.I114T	TGACCATTGACGG	.	PASS	Atlas-SNP
MYOM2	9172	hgsc.bcm.edu	37	8	2046700	2046700	+	Missense_Mutation	SNP	C	C	T	rs2294066	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	21	65	0	0.313433	0	C|0.846;N|0.000	.	strong	.	MYOM2	251	.	NM_003970	exon19	c.C2327T	p.T776M	GCTTGACGGAAGG	.	PASS	Atlas-SNP
PNPLA1	285848	hgsc.bcm.edu	37	6	36274153	36274153	+	Missense_Mutation	SNP	C	C	T	rs12197079	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	57	112	0	0.475	0	C|0.747;N|0.000	.	strong	.	PNPLA1	92	.	NM_001145717	exon7	c.C1469T	p.T490M	ATGTAACGTAAGT	.	PASS	Atlas-SNP
CAMK2B	816	hgsc.bcm.edu	37	7	44259871	44259871	+	Silent	SNP	C	C	T	rs1127065	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	82	208	0	0.460674	0	T|0.361;G|0.004;C|0.635	0.361	strong	CAMK2B,NS,carcinoma,0,1	CAMK2B	56	1	NM_001220	exon23	c.G1791A	p.P597P	GTGGATCGGCTTG	.	PASS	Atlas-SNP
C11orf16	56673	hgsc.bcm.edu	37	11	8947283	8947283	+	Missense_Mutation	SNP	G	G	C	rs3751066	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	67	133	0	0.496296	0	G|0.464;C|0.536	0.536	strong	.	C11orf16	43	.	NM_020643	exon5	c.C931G	p.P311A	CTGTGGGCTCCAA	.	PASS	Atlas-SNP
CEACAM16	388551	hgsc.bcm.edu	37	19	45211407	45211407	+	Silent	SNP	C	C	T	rs61744497	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	76	165	0	0.429379	0	C|0.867;T|0.133	0.133	strong	.	CEACAM16	56	.	NM_001039213	exon6	c.C1215T	p.T405T	CAAGACCGTCACA	.	PASS	Atlas-SNP
IDUA	3425	hgsc.bcm.edu	37	4	996165	996165	+	Missense_Mutation	SNP	G	G	A	rs6831280	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	80	165	0	0.540541	0	G|0.821;A|0.179	0.179	strong	.	IDUA	33	.	NM_000203	exon8	c.G1081A	p.A361T	CCCTTCGCGCAGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	31	75	0	0.54386	0	T|0.627;C|0.373	0.373	strong	.	CECR1	77	.	NM_017424	exon6	c.A1004G	p.H335R	TAGTCATGCAAGG	.	PASS	Atlas-SNP
GBP4	115361	hgsc.bcm.edu	37	1	89652102	89652102	+	Missense_Mutation	SNP	A	A	T	rs655260	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	147	468	0	0.98	0	A|0.677;T|0.323	0.323	strong	.	GBP4	89	.	NM_052941	exon10	c.T1621A	p.Y541N	CCATGTATTCCTG	.	PASS	Atlas-SNP
DKKL1	27120	hgsc.bcm.edu	37	19	49878196	49878196	+	Missense_Mutation	SNP	G	G	A	rs2288481	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	70	55	0	1	0	G|0.767;A|0.233	0.233	strong	.	DKKL1	23	.	NM_014419	exon5	c.G640A	p.E214K	GTCCTAGAAGAGG	.	PASS	Atlas-SNP
LPP	4026	hgsc.bcm.edu	37	3	188590446	188590446	+	Silent	SNP	A	A	G	rs1136644	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	220	84	232	1	0.381818	0.00431034	A|0.579;G|0.421	0.421	strong	LPP_ENST00000312675,NS,carcinoma,+1,1	LPP	72	1	NM_005578	exon10	c.A1605G	p.R535R	CCCGCGATGTTCT	.	scavenged	Atlas-SNP
CC2D1A	54862	hgsc.bcm.edu	37	19	14040896	14040896	+	Missense_Mutation	SNP	G	G	A	rs11669628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	34	72	0	0.523077	0	A|0.141;G|0.859;T|0.000	0.141	strong	.	CC2D1A	67	.	NM_017721	exon27	c.G2716A	p.A906T	GAATACGCAGCCC	.	PASS	Atlas-SNP
MTMR7	9108	hgsc.bcm.edu	37	8	17169039	17169039	+	Missense_Mutation	SNP	C	C	T	rs147637471		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	38	73	0	0.452381	0	C|1.000;T|0.000	0.000	weak	.	MTMR7	75	.	NM_004686	exon9	c.G1082A	p.R361Q	AGAGTCCGGTAGT	.	PASS	Atlas-SNP
PER1	5187	hgsc.bcm.edu	37	17	8046680	8046680	+	Silent	SNP	G	G	A	rs112185134	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	59	184	0	0.406897	0	G|0.986;A|0.014	0.014	strong	.	PER1	104	.	NM_002616	exon19	c.C2976T	p.L992L	ACGGGGGAGCTCC	.	PASS	Atlas-SNP
IL12RB1	3594	hgsc.bcm.edu	37	19	18180413	18180413	+	Missense_Mutation	SNP	C	C	G	rs401502	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	24	75	0	0.289157	0	C|0.703;G|0.297	0.297	strong	.	IL12RB1	92	.	NM_005535	exon10	c.G1132C	p.G378R	GGCCCCCGTCCTG	.	PASS	Atlas-SNP
HYAL4	23553	hgsc.bcm.edu	37	7	123514896	123514896	+	Missense_Mutation	SNP	G	G	T	rs6949082	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	31	79	0	0.563636	0	G|0.852;T|0.148	0.148	strong	.	HYAL4	65	.	NM_012269	exon4	c.G1036T	p.A346S	TTAACTGCATCCA	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152187554	152187554	+	Missense_Mutation	SNP	C	C	T	rs61814935	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	496	234	242	0	0.471774	0	.	.	weak	HRNR,NS,haematopoietic_neoplasm,0,1	HRNR	403	1	NM_001009931	exon3	c.G6551A	p.S2184N	CCGCGGCTAGGGG	.	scavenged	Atlas-SNP
ZNF25	219749	hgsc.bcm.edu	37	10	38241067	38241067	+	Missense_Mutation	SNP	A	A	C	rs1208606	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	98	197	0	0.464455	0	A|0.939;C|0.061	0.061	strong	.	ZNF25	66	.	NM_145011	exon6	c.T1359G	p.N453K	CTCAGCATTCCTC	.	PASS	Atlas-SNP
TLR4	7099	hgsc.bcm.edu	37	9	120474891	120474891	+	Missense_Mutation	SNP	T	T	C	rs200168998	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	83	146	0	0.538961	0	.	.	weak	.	TLR4	220	.	NM_138554	exon3	c.T485C	p.I162T	ATCTTATCCAATC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505867	195505867	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	3	228	1	0.0153846	0.00438596	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,8	MUC4	1505	8	NM_018406	exon2	c.T12584A	p.V4195D	TCGGTGACAGGAA	.	scavenged	Atlas-SNP
POFUT2	23275	hgsc.bcm.edu	37	21	46705621	46705621	+	Silent	SNP	G	G	A	rs2297285	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	47	73	0	0.522222	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
KCNMB3	27094	hgsc.bcm.edu	37	3	178968660	178968660	+	Missense_Mutation	SNP	T	T	C	rs1170672	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	313	135	248	1	0.43131	0.00403226	T|0.918;C|0.082	0.082	strong	.	KCNMB3	46	.	NM_014407	exon2	c.A131G	p.D44G	TGCACATCTAGTG	.	PASS	Atlas-SNP
HCLS1	3059	hgsc.bcm.edu	37	3	121351338	121351338	+	Missense_Mutation	SNP	C	C	T	rs2070180	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	72	97	0	0.571429	0	C|0.798;T|0.202	0.202	strong	.	HCLS1	78	.	NM_005335	exon12	c.G1081A	p.E361K	CTGCTTCGTACAC	.	PASS	Atlas-SNP
C2orf62	375307	hgsc.bcm.edu	37	2	219221846	219221846	+	Silent	SNP	G	G	A	rs4324314	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	58	108	0	0.617021	0	G|0.843;A|0.157	0.157	strong	.	C2orf62	28	.	NM_198559	exon2	c.G54A	p.S18S	GCCCTCGGGTCCG	.	PASS	Atlas-SNP
PLA2R1	22925	hgsc.bcm.edu	37	2	160885442	160885442	+	Missense_Mutation	SNP	T	T	C	rs3749117	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	248	298	1	1	0.0033557	T|0.669;C|0.331	0.331	strong	.	PLA2R1	153	.	NM_001195641	exon5	c.A874G	p.M292V	GGCCCATCCACAC	.	PASS	Atlas-SNP
SCNN1B	6338	hgsc.bcm.edu	37	16	23360174	23360174	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	229	3	153	0	0.0131004	0	.	.	none	SCNN1B_ENST00000307331,NS,carcinoma,+1,2	SCNN1B	81	2	NM_000336	exon2	c.T254C	p.V85A	TCTCCGTAGGCTT	.	scavenged	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	37	22	26219605	26219605	+	Silent	SNP	G	G	A	rs4820658	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	58	131	0	0.456693	0	G|0.815;A|0.185	0.185	strong	.	MYO18B	322	.	NM_032608	exon13	c.G2655A	p.G885G	GTTTGGGCCAAGC	.	PASS	Atlas-SNP
ACSS2	55902	hgsc.bcm.edu	37	20	33470694	33470694	+	Silent	SNP	C	C	T	rs4911163	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	44	152	0	0.354839	0	C|0.467;T|0.533	0.533	strong	.	ACSS2	75	.	NM_001076552	exon2	c.C276T	p.F92F	AATCTTCATTGAG	.	PASS	Atlas-SNP
MUS81	80198	hgsc.bcm.edu	37	11	65631167	65631167	+	Silent	SNP	C	C	T	rs648732	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	165	180	1	1	0.00555556	C|0.515;T|0.485	0.485	strong	.	MUS81	68	.	NM_025128	exon9	c.C936T	p.A312A	GGTGGCCCAGGAG	.	PASS	Atlas-SNP
EP400	57634	hgsc.bcm.edu	37	12	132562126	132562126	+	Missense_Mutation	SNP	G	G	A	rs73164912	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	112	118	0	0.973913	0	G|0.875;A|0.125	0.125	strong	.	EP400	370	.	NM_015409	exon53	c.G9280A	p.A3094T	GTGCCCGCCAGCT	.	PASS	Atlas-SNP
COLEC12	81035	hgsc.bcm.edu	37	18	346821	346821	+	Silent	SNP	C	C	T	rs3826628	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	36	142	0	0.342857	0	C|0.763;T|0.237	0.237	strong	COLEC12,colon,carcinoma,0,1	COLEC12	121	1	NM_130386	exon5	c.G801A	p.T267T	AGCCAGCGTCTGC	.	PASS	Atlas-SNP
UGT2B17	7367	hgsc.bcm.edu	37	4	69433714	69433714	+	Silent	SNP	C	C	T	rs34664906	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	396	179	1	1	0.45202	1	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	.	scavenged	Atlas-SNP
ICOSLG	23308	hgsc.bcm.edu	37	21	45656774	45656774	+	Missense_Mutation	SNP	C	C	T	rs11558819	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	33	70	0	0.445946	0	C|0.738;T|0.262	0.262	strong	ICOSLG,NS,carcinoma,0,1	ICOSLG	20	1	NM_015259	exon3	c.G382A	p.V128I	CCTCAACGCTCAA	.	PASS	Atlas-SNP
KDM1B	221656	hgsc.bcm.edu	37	6	18161563	18161563	+	Silent	SNP	G	G	A	rs4716224	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	34	89	0	0.459459	0	G|0.683;A|0.317	0.317	strong	.	KDM1B	58	.	NM_153042	exon4	c.G93A	p.K31K	GGCGAAGAAGAAA	.	PASS	Atlas-SNP
PAF1	54623	hgsc.bcm.edu	37	19	39880011	39880011	+	Silent	SNP	G	G	A	rs2074852	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	105	204	0	0.509709	0	A|0.060;C|0.007	0.060	strong	.	PAF1	43	.	NM_019088	exon6	c.C372T	p.H124H	CTTCGCGTGCTGC	.	PASS	Atlas-SNP
CHIT1	1118	hgsc.bcm.edu	37	1	203194186	203194186	+	Missense_Mutation	SNP	C	C	T	rs2297950	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	58	71	0	0.651685	0	C|0.715;N|0.000	.	strong	CHIT1,NS,carcinoma,0,1	CHIT1	61	1	NM_001270509	exon4	c.G304A	p.G102S	GAGTGCCGAAATT	.	PASS	Atlas-SNP
NLRP13	126204	hgsc.bcm.edu	37	19	56423074	56423074	+	Silent	SNP	C	C	G	rs977070	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	40	106	0	0.454545	0	C|0.480;G|0.520	0.520	strong	NLRP13,NS,carcinoma,0,1	NLRP13	220	1	NM_176810	exon5	c.G2109C	p.L703L	TCACTCCAGAATT	.	PASS	Atlas-SNP
CCDC146	57639	hgsc.bcm.edu	37	7	76871086	76871086	+	Silent	SNP	G	G	A	rs74783981	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	334	162	308	1	0.48503	0.00324675	G|0.931;A|0.069	0.069	strong	.	CCDC146	87	.	NM_020879	exon4	c.G318A	p.L106L	TCACCTGCAGCAA	.	PASS	Atlas-SNP
MPND	84954	hgsc.bcm.edu	37	19	4352959	4352959	+	Silent	SNP	A	A	G	rs11882587	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	67	130	0	0.421384	0	A|0.386;G|0.614	0.614	strong	.	MPND	28	.	NM_032868	exon4	c.A597G	p.A199A	TCTGGCAGGGGTC	.	PASS	Atlas-SNP
SLCO1B3	28234	hgsc.bcm.edu	37	12	21015760	21015760	+	Missense_Mutation	SNP	G	G	A	rs7311358	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	195	221	0	0.994898	0	G|0.289;A|0.711	0.711	strong	.	SLCO1B3	151	.	NM_019844	exon8	c.G699A	p.M233I	TAAAATGTACGTG	.	PASS	Atlas-SNP
CDH17	1015	hgsc.bcm.edu	37	8	95143172	95143172	+	Missense_Mutation	SNP	T	T	G	rs1051624	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	12	34	0	0.255319	0	T|0.524;G|0.476	0.476	strong	.	CDH17	119	.	NM_004063	exon16	c.A2216C	p.E739A	ACATACTCCCTCT	.	PASS	Atlas-SNP
OR13C5	138799	hgsc.bcm.edu	37	9	107360826	107360826	+	Missense_Mutation	SNP	A	A	G	rs1851725	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	101	184	0	0.531579	0	A|0.634;G|0.366	0.366	strong	.	OR13C5	60	.	NM_001004482	exon1	c.T869C	p.M290T	TTCATCATGGGAG	.	PASS	Atlas-SNP
SLC36A2	153201	hgsc.bcm.edu	37	5	150723806	150723806	+	Silent	SNP	G	G	A	rs192192	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	78	188	0	0.329114	0	G|0.470;A|0.530	0.530	strong	.	SLC36A2	71	.	NM_181776	exon2	c.C187T	p.L63L	TCACCAGGTGAAT	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187538330	187538330	+	Silent	SNP	G	G	A	rs1280099	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	79	140	0	0.533784	0	G|0.546;A|0.453	0.453	strong	.	FAT1	500	.	NM_005245	exon11	c.C8904T	p.A2968A	TTCAACGGCAAAC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	279	279	325	0	1	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
MUC4	4585	hgsc.bcm.edu	37	3	195509603	195509603	+	Missense_Mutation	SNP	T	T	C	rs433791		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	446	59	170	7	0.132287	0.0411765	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.A8848G	p.T2950A	AGGAAGTGTCGGT	.	scavenged	Atlas-SNP
NAT2	10	hgsc.bcm.edu	37	8	18258316	18258316	+	Missense_Mutation	SNP	G	G	A	rs1208	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	21	47	0	0.403846	0	G|0.370;A|0.630	0.630	strong	.	NAT2	34	.	NM_000015	exon2	c.G803A	p.R268K	TGCTGAGAAATAT	.	PASS	Atlas-SNP
SEC23A	10484	hgsc.bcm.edu	37	14	39517925	39517925	+	Silent	SNP	T	T	C	rs11556216	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	14	27	0	0.636364	0	T|0.741;C|0.259	0.259	strong	.	SEC23A	73	.	NM_006364	exon15	c.A1668G	p.K556K	TCCAAATTTCTGA	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49439900	49439900	+	Silent	SNP	G	G	A	rs377048725		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	83	151	0	0.474286	0	.	.	weak	.	MLL2	1173	.	NM_003482	exon17	c.C4641T	p.A1547A	TTCATCGGCTGCC	.	PASS	Atlas-SNP
BBS1	582	hgsc.bcm.edu	37	11	66282095	66282095	+	Silent	SNP	G	G	A	rs2298806	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	17	37	0	0.485714	0	G|0.793;A|0.207	0.207	strong	BBS1,NS,carcinoma,0,1	BBS1	58	1	NM_024649	exon4	c.G378A	p.L126L	CAGCCTGCCCCAA	.	PASS	Atlas-SNP
IBSP	3381	hgsc.bcm.edu	37	4	88732918	88732918	+	Missense_Mutation	SNP	A	A	T	rs1054629	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	54	71	0	0.509434	0	A|0.771;T|0.229	0.229	strong	.	IBSP	53	.	NM_004967	exon7	c.A810T	p.E270D	CAATGAATACGAC	.	PASS	Atlas-SNP
PCTP	58488	hgsc.bcm.edu	37	17	53828493	53828493	+	Missense_Mutation	SNP	A	A	C	rs12941739	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	13	64	0	0.419355	0	A|0.914;C|0.086	0.086	strong	.	PCTP	17	.	NM_021213	exon1	c.A29C	p.E10A	TCTCGGAGGAGCA	.	PASS	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	37	5	95234091	95234091	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	330	165	311	0	0.5	0	.	.	none	.	ELL2	63	.	NM_012081	exon8	c.A1378G	p.K460E	ACTTTTTGTGAGA	.	PASS	Atlas-SNP
MIB2	142678	hgsc.bcm.edu	37	1	1551927	1551927	+	Missense_Mutation	SNP	T	T	C	rs7418389	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	164	243	0	0.993939	0	T|0.464;C|0.536	0.536	strong	.	MIB2	62	.	NM_001170687	exon2	c.T214C	p.F72L	CAAAGTTTCCAGG	.	PASS	Atlas-SNP
KPNA3	3839	hgsc.bcm.edu	37	13	50283819	50283819	+	Silent	SNP	T	T	C	rs17073322	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	37	71	0	0.445783	0	T|0.881;C|0.119	0.119	strong	.	KPNA3	53	.	NM_002267	exon12	c.A921G	p.A307A	GCCAACTGCTCTG	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25060313	25060313	+	Silent	SNP	A	A	G	rs73154350	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	463	283	568	0	0.611231	0	A|0.924;G|0.076	0.076	strong	.	PARP4	142	.	NM_006437	exon11	c.T1345C	p.L449L	GACACAAGATTCC	.	PASS	Atlas-SNP
HNF1A	6927	hgsc.bcm.edu	37	12	121432117	121432117	+	Silent	SNP	G	G	C	rs56348580	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	17	55	0	0.548387	0	G|0.754;C|0.246	0.246	strong	HNF1A,brain,glioma,0,1	HNF1A	302	1	NM_000545	exon4	c.G864C	p.G288G	CAGCGGGCCCCCC	.	PASS	Atlas-SNP
VWF	7450	hgsc.bcm.edu	37	12	6138595	6138595	+	Silent	SNP	C	C	T	rs1800380	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	69	138	0	0.518797	0	C|0.766;T|0.234	0.234	strong	.	VWF	338	.	NM_000552	exon22	c.G2880A	p.R960R	GATGTACCGGCCA	.	PASS	Atlas-SNP
FAM209A	200232	hgsc.bcm.edu	37	20	55100056	55100056	+	Silent	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	293	25	242	0	0.0853242	0	.	.	none	C20orf106,caecum,carcinoma,+2,1	.	.	1	NM_001012971	exon1	c.T192G	p.L64L	GCTTCTTTTTGTT	.	PASS	Atlas-SNP
NUB1	51667	hgsc.bcm.edu	37	7	151074296	151074296	+	Silent	SNP	A	A	G	rs2159158	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	41	78	0	0.42268	0	A|0.597;G|0.403	0.403	strong	.	NUB1	31	.	NM_001243351	exon15	c.A1905G	p.A635A	GTCAGCAACAAAG	.	PASS	Atlas-SNP
TAF4B	6875	hgsc.bcm.edu	37	18	23866349	23866349	+	Silent	SNP	G	G	A	rs3744961	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	51	113	0	0.566667	0	G|0.879;A|0.121	0.121	strong	.	TAF4B	71	.	NM_005640	exon7	c.G1476A	p.G492G	TGCTGGGACCACA	.	PASS	Atlas-SNP
ALPK3	57538	hgsc.bcm.edu	37	15	85383145	85383145	+	Missense_Mutation	SNP	C	C	G	rs3803403	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	53	95	0	0.53	0	C|0.808;G|0.192	0.192	strong	.	ALPK3	289	.	NM_020778	exon5	c.C1241G	p.T414S	TCGACACTCTGCG	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2836181	2836181	+	Missense_Mutation	SNP	A	A	T	rs73632975	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	69	187	0	0.436709	0	A|0.913;T|0.087	0.087	strong	.	ARSD	47	.	NM_001669	exon5	c.T527A	p.M176K	AAGGGCATGCCGT	.	PASS	Atlas-SNP
OR2W3	343171	hgsc.bcm.edu	37	1	248059456	248059456	+	Missense_Mutation	SNP	G	G	A	rs12135078	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	289	152	324	0	0.525952	0	G|0.601;A|0.399	0.399	strong	OR2W3,brain,glioma,0,1	OR2W3	113	1	NM_001001957	exon1	c.G568A	p.V190I	GCCTGCGTCAGCA	.	PASS	Atlas-SNP
FZD9	8326	hgsc.bcm.edu	37	7	72848499	72848499	+	Silent	SNP	G	G	C	rs61749861	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	9	9	12	0	1	0	G|0.970;C|0.030	0.030	strong	.	FZD9	51	.	NM_003508	exon1	c.G162C	p.L54L	CAACCTGACCCGC	.	PASS	Atlas-SNP
CR1	1378	hgsc.bcm.edu	37	1	207787831	207787831	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	298	4	319	1	0.0134228	0.0031348	.	.	none	CR1_ENST00000367049,NS,carcinoma,0,12	CR1	354	12	NM_000651	exon40	c.G6658T	p.E2220X	GTGTGTGAACGTG	.	scavenged	Atlas-SNP
NACAD	23148	hgsc.bcm.edu	37	7	45120248	45120248	+	Silent	SNP	G	G	A	rs1132130	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	127	232	1	0.501976	0.00431034	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
KIAA1614	57710	hgsc.bcm.edu	37	1	180905448	180905448	+	Missense_Mutation	SNP	G	G	T	rs3795504	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	58	89	0	0.439394	0	G|0.614;T|0.386	0.386	strong	.	KIAA1614	75	.	NM_020950	exon5	c.G2403T	p.L801F	TTCCTTGTGTCCT	.	PASS	Atlas-SNP
ZDHHC24	254359	hgsc.bcm.edu	37	11	66313203	66313203	+	Missense_Mutation	SNP	T	T	C	rs2305534	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	10	115	0	0.238095	0	T|0.753;C|0.247	0.247	strong	.	ZDHHC24	13	.	NM_207340	exon1	c.A272G	p.Q91R	CAGCCCTGGCCCA	.	PASS	Atlas-SNP
ATXN1	6310	hgsc.bcm.edu	37	6	16327903	16327903	+	Missense_Mutation	SNP	C	C	A	rs3817753	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	10	80	0	0.0917431	0	C|0.899;A|0.101	0.101	strong	ATXN1,rectum,carcinoma,0,1	ATXN1	117	1	NM_001128164	exon7	c.G639T	p.Q213H	CTGCTGCTGCTGA	.	PASS	Atlas-SNP
INTS2	57508	hgsc.bcm.edu	37	17	59969000	59969000	+	Silent	SNP	T	T	C	rs753765	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	47	98	0	0.435185	0	T|0.903;C|0.097	0.097	strong	INTS2,NS,carcinoma,0,1	INTS2	89	1	NM_020748	exon14	c.A1773G	p.Q591Q	AAGTAATTGAGGA	.	PASS	Atlas-SNP
OR10G4	390264	hgsc.bcm.edu	37	11	123886352	123886352	+	Missense_Mutation	SNP	T	T	C	rs547068	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	328	93	471	1	0.283537	0.00212314	T|0.958;C|0.042	0.042	strong	OR10G4,NS,haematopoietic_neoplasm,-1,1	OR10G4	77	1	NM_001004462	exon1	c.T71C	p.L24P	ACGCCCTCCTCTT	.	scavenged	Atlas-SNP
SCN11A	11280	hgsc.bcm.edu	37	3	38936134	38936134	+	Missense_Mutation	SNP	C	C	T	rs33985936	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	138	202	0	0.654028	0	C|0.801;T|0.199	0.199	strong	.	SCN11A	296	.	NM_014139	exon15	c.G2725A	p.V909I	GCCTGACGCCCAG	.	PASS	Atlas-SNP
GLI2	2736	hgsc.bcm.edu	37	2	121726447	121726447	+	Silent	SNP	G	G	A	rs2592595	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	85	82	0	1	0	G|0.177;A|0.823	0.823	strong	.	GLI2	187	.	NM_005270	exon5	c.G801A	p.S267S	CAGCTCGGCGGCC	.	PASS	Atlas-SNP
STX16	8675	hgsc.bcm.edu	37	20	57244493	57244493	+	Silent	SNP	G	G	A	rs2296524	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	41	97	0	0.493976	0	G|0.492;A|0.508	0.508	strong	.	STX16	36	.	NM_001001433	exon5	c.G540A	p.Q180Q	CGCACAGTCAGGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	125	132	0	1	0	G|0.542;A|0.458	0.458	strong	.	NRXN2	247	.	NM_015080	exon14	c.C2745T	p.I915I	GGCCACGATGGCA	.	PASS	Atlas-SNP
UBR1	197131	hgsc.bcm.edu	37	15	43256191	43256191	+	Missense_Mutation	SNP	T	T	C	rs3917223	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	71	85	0	0.612069	0	T|0.847;G|0.006;C|0.046;A|0.102	0.046	strong	.	UBR1	124	.	NM_174916	exon42	c.A4642G	p.T1548A	AATTTGTAGGTAA	.	PASS	Atlas-SNP
SH2D4A	63898	hgsc.bcm.edu	37	8	19218745	19218745	+	Missense_Mutation	SNP	A	A	G	rs35647122	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	40	87	0	0.470588	0	A|0.963;G|0.037	0.037	strong	.	SH2D4A	49	.	NM_022071	exon6	c.A626G	p.E209G	AAGATGAAGAAAT	.	PASS	Atlas-SNP
OR5J2	282775	hgsc.bcm.edu	37	11	55944474	55944474	+	Silent	SNP	G	G	A	rs4489763	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	390	190	371	1	0.487179	0.00269542	G|0.903;A|0.097	0.097	strong	OR5J2,NS,carcinoma,0,1	OR5J2	98	1	NM_001005492	exon1	c.G381A	p.V127V	CATTGTGAGTCCC	.	PASS	Atlas-SNP
ZDHHC21	340481	hgsc.bcm.edu	37	9	14662260	14662260	+	Silent	SNP	A	A	G	rs17215796	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	153	273	0	1	0	A|0.899;G|0.101	0.101	strong	.	ZDHHC21	22	.	NM_178566	exon6	c.T318C	p.C106C	GCGGCTACAGTGA	.	PASS	Atlas-SNP
CES1	1066	hgsc.bcm.edu	37	16	55862824	55862824	+	Missense_Mutation	SNP	C	C	T	rs3826192	bycluster;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	24	108	0	0.206897	0	C|0.998;T|0.002	0.002	strong	.	CES1	78	.	NM_001025195	exon2	c.G115A	p.V39I	AGCTGACGAACTT	.	PASS	Atlas-SNP
ANTXR1	84168	hgsc.bcm.edu	37	2	69472476	69472476	+	Silent	SNP	G	G	A	rs147959058	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	79	147	0	0.473054	0	G|0.980;A|0.020	0.020	strong	ANTXR1,NS,lymphoid_neoplasm,+1,1	ANTXR1	128	1	NM_032208	exon18	c.G1554A	p.A518A	TCCTGCGCCCCAC	.	PASS	Atlas-SNP
INPP5F	22876	hgsc.bcm.edu	37	10	121579040	121579040	+	Silent	SNP	T	T	C	rs17099318	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	77	128	0	0.538462	0	T|0.916;C|0.084	0.084	strong	.	INPP5F	112	.	NM_001243194	exon1	c.T45C	p.F15F	ACAATTTTCAGAG	.	PASS	Atlas-SNP
SPATA24	202051	hgsc.bcm.edu	37	5	138732579	138732579	+	Silent	SNP	C	C	T	rs10900862	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	146	254	0	0.579365	0	C|0.593;T|0.407	0.407	strong	Q8N799_HUMAN,colon,carcinoma,0,1	.	.	1	NM_194296	exon6	c.G528A	p.E176E	GTAGCTCTCCTGC	.	PASS	Atlas-SNP
KRT39	390792	hgsc.bcm.edu	37	17	39116728	39116728	+	Missense_Mutation	SNP	G	G	A	rs17843021	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	125	143	0	0.992063	0	G|0.868;A|0.132	0.132	strong	.	KRT39	53	.	NM_213656	exon6	c.C1022T	p.T341M	GTCTCCGTTAGGA	.	PASS	Atlas-SNP
ADRA1A	148	hgsc.bcm.edu	37	8	26721888	26721888	+	Missense_Mutation	SNP	A	A	C	rs2229125	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	32	37	0	0.581818	0	A|0.984;C|0.016	0.016	strong	.	ADRA1A	337	.	NM_033303	exon1	c.T599G	p.I200S	ACCAGGATGATGG	.	PASS	Atlas-SNP
CD99	4267	hgsc.bcm.edu	37	X	2644302	2644302	+	Silent	SNP	C	C	T	rs200217367		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	77	154	0	0.445087	0	.	.	weak	.	CD99	12	.	NM_002414	exon8	c.C363T	p.A121A	TGCAGCCGACGCC	.	PASS	Atlas-SNP
SSTR4	6754	hgsc.bcm.edu	37	20	23016970	23016970	+	Missense_Mutation	SNP	T	T	G	rs3746726	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	79	167	0	0.451429	0	T|0.674;G|0.326	0.326	strong	SSTR4,colon,carcinoma,0,1	SSTR4	83	1	NM_001052	exon1	c.T850G	p.F284V	AACCTCTTCGTGA	.	PASS	Atlas-SNP
NBPF3	84224	hgsc.bcm.edu	37	1	21795388	21795388	+	Missense_Mutation	SNP	A	A	G	rs1827293	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	104	185	0	0.577778	0	A|0.554;G|0.446	0.446	strong	NBPF3,NS,carcinoma,0,1	NBPF3	55	1	NM_001256416	exon3	c.C341G	p.A114G	ATAATTACGGTAA	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63932513	63932513	+	Silent	SNP	G	G	C	rs2228517	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	145	139	0	1	0	G|0.631;C|0.369	0.369	strong	HERC1_ENST00000443617,NS,carcinoma,0,1	HERC1	624	1	NM_003922	exon61	c.C11739G	p.L3913L	GTCAGGGAGACAG	.	PASS	Atlas-SNP
SLFN11	91607	hgsc.bcm.edu	37	17	33690466	33690466	+	Missense_Mutation	SNP	C	C	A	rs12453150	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	65	69	0	0.984848	0	C|0.564;A|0.436	0.436	strong	.	SLFN11	112	.	NM_152270	exon2	c.G361T	p.V121F	GCTTGACAGAGCG	.	PASS	Atlas-SNP
POLG	5428	hgsc.bcm.edu	37	15	89864987	89864987	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	20	79	0	0.18018	0	.	.	none	.	POLG	75	.	NM_002693	exon16	c.C2578T	p.L860F	CGGTGAGCCATGT	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501786	501786	+	Missense_Mutation	SNP	C	C	A	rs77264553	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	84	140	3	0.444444	0.0214286	C|0.500;A|0.500	0.500	strong	MADCAM1,NS,carcinoma,0,1	MADCAM1	29	1	NM_130760	exon4	c.C785A	p.P262Q	CCTCCCCGGAGCC	.	scavenged	Atlas-SNP
CASP2	835	hgsc.bcm.edu	37	7	142991361	142991361	+	Missense_Mutation	SNP	G	G	C	rs4647297	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	30	51	0	0.526316	0	G|0.954;C|0.046	0.046	strong	CASP2,NS,carcinoma,0,1	CASP2	55	1	NM_032982	exon5	c.G514C	p.V172L	GGTCCTGTCTGCC	.	PASS	Atlas-SNP
FAM114A1	92689	hgsc.bcm.edu	37	4	38945169	38945169	+	Silent	SNP	A	A	G	rs1060582	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	206	201	1	1	0.00497512	A|0.883;G|0.117	0.117	strong	.	FAM114A1	42	.	NM_138389	exon15	c.A1683G	p.A561A	GAAAGCACAGCCG	.	PASS	Atlas-SNP
LAD1	3898	hgsc.bcm.edu	37	1	201351421	201351421	+	Missense_Mutation	SNP	T	T	A	rs2275866	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	98	192	0	0.420601	0	T|0.942;A|0.058	0.058	strong	.	LAD1	42	.	NM_005558	exon9	c.A1507T	p.T503S	ACTGAGTCCTCTC	.	PASS	Atlas-SNP
BTN3A2	11118	hgsc.bcm.edu	37	6	26370707	26370707	+	Silent	SNP	T	T	C	rs9379862	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	347	169	215	0	0.487032	0	T|0.752;C|0.248	0.248	strong	.	BTN3A2	44	.	NM_001197246	exon3	c.T591C	p.D197D	TGCAGATGGAGTG	.	PASS	Atlas-SNP
CMSS1	84319	hgsc.bcm.edu	37	3	99886662	99886662	+	Missense_Mutation	SNP	G	G	A	rs11537816	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	51	94	0	0.53125	0	G|0.873;A|0.127	0.127	strong	.	.	.	.	NM_032359	exon6	c.G496A	p.V166I	TCGGCCGTCCGAG	.	PASS	Atlas-SNP
OR6S1	341799	hgsc.bcm.edu	37	14	21109305	21109305	+	Silent	SNP	G	G	A	rs376650163		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	2	84	0	0.0163934	0	.	.	weak	OR6S1,NS,carcinoma,0,1	OR6S1	49	1	NM_001001968	exon1	c.C546T	p.C182C	ACTGTCGCAGAAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	31	82	0	0.492063	0	A|0.860;G|0.140	0.140	strong	.	HEXB	34	.	NM_000521	exon5	c.A619G	p.I207V	ATTTTGATTGATA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	30	86	0	0.491803	0	G|0.699;T|0.301	0.301	strong	.	COL22A1	390	.	NM_152888	exon37	c.C2813A	p.A938D	CCGGGAGCACCCT	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121653250	121653250	+	Missense_Mutation	SNP	G	G	A	rs61732005	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	96	198	0	0.533333	0	G|0.926;A|0.074	0.074	strong	.	PTPRZ1	605	.	NM_002851	exon12	c.G4150A	p.D1384N	CACAGAGATGGTT	.	PASS	Atlas-SNP
GBP4	115361	hgsc.bcm.edu	37	1	89652071	89652071	+	Missense_Mutation	SNP	T	T	C	rs561042	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	133	427	2	0.985185	0.00468384	T|0.620;C|0.380	0.380	strong	GBP4,NS,carcinoma,+1,1	GBP4	89	1	NM_052941	exon10	c.A1652G	p.E551G	CTTTCCTCCTCCA	.	PASS	Atlas-SNP
TDO2	6999	hgsc.bcm.edu	37	4	156830085	156830085	+	Missense_Mutation	SNP	G	G	A	rs375801975		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	38	96	0	0.506667	0	.	.	weak	.	TDO2	51	.	NM_005651	exon5	c.G350A	p.R117Q	TGCACCGAGTGTC	.	PASS	Atlas-SNP
AQP4	361	hgsc.bcm.edu	37	18	24442227	24442227	+	Silent	SNP	C	C	T	rs72557968	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	35	83	0	0.460526	0	C|0.983;T|0.017	0.017	strong	.	AQP4	27	.	NM_001650	exon2	c.G366A	p.Q122Q	CAGGCACTGGGCT	.	PASS	Atlas-SNP
SNAPC3	6619	hgsc.bcm.edu	37	9	15422888	15422888	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	12	53	0	0.333333	0	.	.	none	.	SNAPC3	28	.	NM_001039697	exon1	c.G11C	p.G4A	CTGAAGGAAGCCG	.	PASS	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	37	19	11326119	11326119	+	Silent	SNP	A	A	G	rs2304155	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	60	123	0	0.5	0	G|0.539;N|0.001	0.539	strong	.	DOCK6	104	.	NM_020812	exon32	c.T4050C	p.N1350N	GCGCACATTCTCC	.	PASS	Atlas-SNP
PCDHB4	56131	hgsc.bcm.edu	37	5	140503002	140503002	+	Silent	SNP	C	C	A	rs61741603	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	16	217	0	0.0888889	0	C|0.912;A|0.088	0.088	strong	PCDHB4,leg,malignant_melanoma,0,1	PCDHB4	177	1	NM_018938	exon1	c.C1422A	p.A474A	CAGCGCCACAGAC	.	scavenged	Atlas-SNP
OR10H1	26539	hgsc.bcm.edu	37	19	15918201	15918201	+	Missense_Mutation	SNP	A	A	G	rs61745520	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	302	35	259	2	0.115894	0.00772201	A|0.897;G|0.103	0.103	strong	OR10H1,NS,carcinoma,0,1	OR10H1	59	1	NM_013940	exon1	c.T647C	p.L216P	GAGAGGAGGATGA	.	scavenged	Atlas-SNP
CHL1	10752	hgsc.bcm.edu	37	3	391100	391100	+	Missense_Mutation	SNP	A	A	G	rs13060847	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	66	59	0	1	0	A|0.166;G|0.834	0.834	strong	.	CHL1	242	.	NM_001253388	exon8	c.A907G	p.T303A	AGAGAAACAAAAG	.	PASS	Atlas-SNP
XPO7	23039	hgsc.bcm.edu	37	8	21833965	21833965	+	Silent	SNP	C	C	T	rs2306641	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	132	136	0	0.992481	0	C|0.655;T|0.345	0.345	strong	.	XPO7	79	.	NM_015024	exon7	c.C696T	p.I232I	CTTCATCGGCACT	.	PASS	Atlas-SNP
C5orf60	285679	hgsc.bcm.edu	37	5	179069912	179069912	+	Missense_Mutation	SNP	C	C	T	rs75942553	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	511	338	453	0	0.661448	0	C|0.934;T|0.066	0.066	strong	.	C5orf60	24	.	NM_001142306	exon4	c.G641A	p.S214N	AGGGTGCTCGCAG	.	PASS	Atlas-SNP
ARHGAP40	343578	hgsc.bcm.edu	37	20	37272551	37272551	+	Missense_Mutation	SNP	A	A	C	rs369137106		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	41	74	0	0.471264	0	.	.	weak	.	ARHGAP40	50	.	NM_001164431	exon11	c.A1564C	p.T522P	CTGTGGACGGTGA	.	PASS	Atlas-SNP
LY6G6F	259215	hgsc.bcm.edu	37	6	31675297	31675297	+	Missense_Mutation	SNP	C	C	T	rs805295	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	163	251	1	0.624521	0.00398406	C|0.905;T|0.095	0.095	strong	.	LY6G6F	23	.	NM_001003693	exon2	c.C115T	p.P39S	TCACCACCTACTC	.	PASS	Atlas-SNP
AQP12B	653437	hgsc.bcm.edu	37	2	241621908	241621908	+	Missense_Mutation	SNP	G	G	A	rs190367401	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	31	100	0	0.607843	0	G|0.987;A|0.013	0.013	strong	.	AQP12B	33	.	NM_001102467	exon1	c.C347T	p.A116V	TGTGCCGCCAGCT	.	PASS	Atlas-SNP
MUS81	80198	hgsc.bcm.edu	37	11	65629932	65629932	+	Silent	SNP	T	T	C	rs659857	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	142	157	0	0.993007	0	T|0.520;G|0.002	.	strong	.	MUS81	68	.	NM_025128	exon6	c.T537C	p.A179A	GAGTGCTCGACCC	.	PASS	Atlas-SNP
PXMP2	5827	hgsc.bcm.edu	37	12	133272470	133272470	+	Silent	SNP	G	G	T	rs74727297	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	58	110	0	0.453125	0	G|0.928;T|0.072	0.072	strong	.	PXMP2	15	.	NM_018663	exon3	c.G237T	p.G79G	CCTCAGGTTCTTC	.	PASS	Atlas-SNP
SBSN	374897	hgsc.bcm.edu	37	19	36018272	36018272	+	Silent	SNP	C	C	T	rs12461911	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	4	4	1	0	1	0	C|0.795;T|0.205	0.205	strong	.	SBSN	58	.	NM_001166034	exon1	c.G912A	p.A304A	CTGCCCCGCAGCA	.	PASS	Atlas-SNP
FAM208A	23272	hgsc.bcm.edu	37	3	56680943	56680943	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	27	109	0	0.226891	0	.	.	none	.	FAM208A	113	.	NM_001112736	exon14	c.C1822T	p.R608W	CAGGCCGAAAAAT	.	PASS	Atlas-SNP
UGT1A7	54577	hgsc.bcm.edu	37	2	234590970	234590970	+	Missense_Mutation	SNP	T	T	G	rs76359435	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	43	143	0	0.346774	0	.	.	weak	.	UGT1A7	74	.	NM_019077	exon1	c.T387G	p.N129K	GTTTAATGACCGA	.	PASS	Atlas-SNP
LRRC8B	23507	hgsc.bcm.edu	37	1	90048248	90048248	+	Silent	SNP	C	C	T	rs12130207	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	62	163	0	0.4	0	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	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501714	501714	+	Missense_Mutation	SNP	C	C	A	rs78071082	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	24	182	0	0.0979592	0	A|0.000;C|1.000;T|0.000	0.000	strong	.	MADCAM1	29	.	NM_130760	exon4	c.C713A	p.P238Q	CCTCCCCGGAGTC	.	PASS	Atlas-SNP
FLII	2314	hgsc.bcm.edu	37	17	18156957	18156957	+	Silent	SNP	G	G	A	rs147128917	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	75	128	0	0.438596	0	G|0.999;A|0.001	0.001	strong	.	FLII	79	.	NM_002018	exon8	c.C756T	p.N252N	GCTGAGGTTGAGG	.	PASS	Atlas-SNP
FBXO33	254170	hgsc.bcm.edu	37	14	39870594	39870594	+	Silent	SNP	T	T	C	rs61754302	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	70	125	0	0.48951	0	T|1.000;C|0.000	0.000	weak	.	FBXO33	21	.	NM_203301	exon3	c.A1182G	p.L394L	CCTCTCTAGTGGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	143	149	0	0.993056	0	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
YDJC	150223	hgsc.bcm.edu	37	22	21982892	21982892	+	Missense_Mutation	SNP	C	C	T	rs2298428	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	7	40	0	0.466667	0	C|0.795;T|0.205	0.205	strong	.	YDJC	8	.	NM_001017964	exon5	c.G787A	p.A263T	AGAAAGCGTCGGG	.	PASS	Atlas-SNP
ZC3H14	79882	hgsc.bcm.edu	37	14	89061298	89061298	+	Silent	SNP	G	G	A	rs78648645	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	50	85	0	0.50505	0	G|0.983;A|0.017	0.017	strong	.	ZC3H14	71	.	NM_207662	exon1	c.G228A	p.K76K	GTCCAAGAATGAA	.	PASS	Atlas-SNP
MTF1	4520	hgsc.bcm.edu	37	1	38289383	38289383	+	Silent	SNP	T	T	C	rs12751325	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	46	122	0	0.393162	0	T|0.771;C|0.229	0.229	strong	.	MTF1	67	.	NM_005955	exon8	c.A1170G	p.T390T	CAAACCTGTCTGT	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	37	15	86123364	86123364	+	Missense_Mutation	SNP	G	G	A	rs7177107	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	141	161	0	1	0	G|0.875;A|0.125	0.125	strong	.	AKAP13	394	.	NM_007200	exon7	c.G2065A	p.E689K	GTTAGCGAGTCCG	.	PASS	Atlas-SNP
STIM1	6786	hgsc.bcm.edu	37	11	4103524	4103524	+	Silent	SNP	A	A	G	rs2304891	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	78	160	1	0.5	0.00625	A|0.576;G|0.424	0.424	strong	STIM1,NS,carcinoma,0,2	STIM1	55	2	NM_003156	exon8	c.A1080G	p.Q360Q	GGTGCAATATTAC	.	scavenged	Atlas-SNP
SGOL2	151246	hgsc.bcm.edu	37	2	201436555	201436555	+	Missense_Mutation	SNP	A	A	G	rs17448235	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	70	157	0	0.466667	0	A|0.888;G|0.112	0.112	strong	.	SGOL2	126	.	NM_001160046	exon7	c.A1486G	p.I496V	AAAAGAATAACAA	.	PASS	Atlas-SNP
MELK	9833	hgsc.bcm.edu	37	9	36674842	36674842	+	Silent	SNP	C	C	T	rs2274473	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	40	43	0	1	0	C|0.234;T|0.766	0.766	strong	.	MELK	74	.	NM_014791	exon17	c.C1686T	p.N562N	CTATAACGTGACT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	168	164	0	0.988235	0	C|0.535;T|0.465	0.465	strong	.	MUC16	4315	.	NM_024690	exon3	c.G28504A	p.A9502T	TAGAAGCGGCCAG	.	PASS	Atlas-SNP
THSD7A	221981	hgsc.bcm.edu	37	7	11676377	11676377	+	Silent	SNP	G	G	A	rs2074598	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	127	222	0	0.524793	0	G|0.745;N|0.000	.	strong	.	THSD7A	219	.	NM_015204	exon2	c.C402T	p.P134P	AATCACGGGCTGA	.	PASS	Atlas-SNP
ZC3H12C	85463	hgsc.bcm.edu	37	11	110035262	110035262	+	Silent	SNP	A	A	G	rs1026608	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	44	61	0	0.564103	0	A|0.746;G|0.254	0.254	strong	.	ZC3H12C	83	.	NM_033390	exon6	c.A1452G	p.R484R	CAAACGAGGTGCT	.	PASS	Atlas-SNP
C9orf57	138240	hgsc.bcm.edu	37	9	74671719	74671719	+	Silent	SNP	T	T	C	rs200607840	bycluster;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	24	33	0	0.615385	0	.	.	alt	.	C9orf57	16	.	NM_001128618	exon3	c.A204G	p.K68K	CTCTTCTTTCCAG	.	PASS	Atlas-SNP
MFSD1	64747	hgsc.bcm.edu	37	3	158538056	158538056	+	Silent	SNP	T	T	C	rs4680469	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	101	213	0	0.400794	0	T|0.820;C|0.180	0.180	strong	.	MFSD1	88	.	NM_022736	exon9	c.T951C	p.L317L	GTGGCTTATATTT	.	PASS	Atlas-SNP
IPO4	79711	hgsc.bcm.edu	37	14	24653954	24653954	+	Missense_Mutation	SNP	G	G	A	rs7146310	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	240	125	209	1	0.520833	0.00478469	G|0.693;A|0.307	0.307	strong	IPO4,NS,carcinoma,+1,1	IPO4	74	1	NM_024658	exon16	c.C1538T	p.A513V	AGCGAGGCCTGGG	.	PASS	Atlas-SNP
KLHL38	340359	hgsc.bcm.edu	37	8	124664874	124664874	+	Missense_Mutation	SNP	T	T	C	rs7386562	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	119	142	0	0.991667	0	T|0.288;C|0.712	0.712	strong	.	KLHL38	81	.	NM_001081675	exon1	c.A293G	p.H98R	GCAATATGTGCCT	.	PASS	Atlas-SNP
CDYL2	124359	hgsc.bcm.edu	37	16	80718879	80718879	+	Silent	SNP	A	A	G	rs8049284	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	56	133	0	0.491228	0	A|0.467;G|0.533	0.533	strong	.	CDYL2	66	.	NM_152342	exon2	c.T172C	p.L58L	TGTGCAACCCATT	.	PASS	Atlas-SNP
MAGEB16	139604	hgsc.bcm.edu	37	X	35821056	35821056	+	Missense_Mutation	SNP	T	T	A	rs4829391	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	118	217	1	1	0.00460829	T|0.434;A|0.566	0.566	strong	.	MAGEB16	64	.	NM_001099921	exon2	c.T743A	p.M248K	CCAGAATGCTCAT	.	PASS	Atlas-SNP
LDHAL6B	92483	hgsc.bcm.edu	37	15	59499274	59499274	+	Silent	SNP	C	C	A	rs3809528	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	57	143	0	0.390411	0	C|0.586;A|0.414	0.414	strong	.	LDHAL6B	30	.	NM_033195	exon1	c.C135A	p.T45T	CTTCACCCCCGTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	66	123	0	0.44	0	A|0.546;G|0.454	0.454	strong	.	LMO2	21	.	NM_005574	exon5	c.T318C	p.I106I	GTCCCCAATGTTC	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147480112	147480112	+	Silent	SNP	T	T	C	rs2303065	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	86	82	1	1	0.0121951	T|0.546;C|0.454	0.454	strong	SPINK5,NS,carcinoma,0,1	SPINK5	245	1	NM_001127699	exon13	c.T1188C	p.H396H	AGTGCATGGCAAC	.	scavenged	Atlas-SNP
BTBD16	118663	hgsc.bcm.edu	37	10	124036305	124036305	+	Splice_Site	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	18	125	0	0.134328	0	.	.	none	BTBD16,bladder,carcinoma,0,1	BTBD16	44	1	NM_144587	exon3	c.19-1G>T	.	CAAGCAGCACAAA	.	PASS	Atlas-SNP
CELA1	1990	hgsc.bcm.edu	37	12	51737562	51737562	+	Missense_Mutation	SNP	T	T	C	rs17860300	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	56	126	0	0.451613	0	T|0.788;C|0.212	0.212	strong	CELA1,NS,carcinoma,+2,1	CELA1	39	1	NM_001971	exon3	c.A175G	p.M59V	CTGTCATCACCCA	.	PASS	Atlas-SNP
KIRREL	55243	hgsc.bcm.edu	37	1	158045965	158045965	+	Missense_Mutation	SNP	G	G	A	rs191487619	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	54	103	0	0.385714	0	G|0.995;A|0.005	0.005	strong	.	KIRREL	346	.	NM_018240	exon2	c.G115A	p.V39M	CGGGCCGTGCTCC	.	PASS	Atlas-SNP
VCAM1	7412	hgsc.bcm.edu	37	1	101203698	101203698	+	Silent	SNP	C	C	T	rs3176878	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	48	169	0	0.32	0	C|0.854;T|0.146	0.146	strong	.	VCAM1	111	.	NM_001078	exon9	c.C2079T	p.D693D	CAAAGACTATTTT	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32487170	32487170	+	Missense_Mutation	SNP	G	G	A	rs17423930	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	15	70	0	0.0694444	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
TOP2A	7153	hgsc.bcm.edu	37	17	38545824	38545824	+	Missense_Mutation	SNP	C	C	A	rs11540720	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	73	111	0	0.493243	0	C|0.957;A|0.043	0.043	strong	.	TOP2A	124	.	NM_001067	exon35	c.G4543T	p.A1515S	TCTTTGCCCGTAC	.	PASS	Atlas-SNP
ECE1	1889	hgsc.bcm.edu	37	1	21573855	21573855	+	Missense_Mutation	SNP	G	G	A	rs1076669	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	58	147	0	0.467742	0	G|0.955;A|0.045	0.045	strong	.	ECE1	76	.	NM_001397	exon9	c.C1022T	p.T341I	GCCAAGGTCTGCA	.	PASS	Atlas-SNP
CEP89	84902	hgsc.bcm.edu	37	19	33414420	33414420	+	Missense_Mutation	SNP	A	A	G	rs4805825	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	77	182	0	0.427778	0	A|0.745;G|0.255	0.255	strong	.	CEP89	82	.	NM_032816	exon12	c.T1193C	p.V398A	TCTTGGACTCGCA	.	PASS	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	37	8	17611886	17611886	+	Silent	SNP	G	G	A	rs2979788	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	224	209	0	0.995556	0	G|0.311;A|0.689	0.689	strong	.	MTUS1	144	.	NM_001001924	exon2	c.C1431T	p.P477P	TAAACTGGGTTTA	.	PASS	Atlas-SNP
PRSS3	5646	hgsc.bcm.edu	37	9	33796673	33796673	+	Missense_Mutation	SNP	G	G	A	rs76740888	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	283	15	236	0	0.0530035	0	.	.	weak	.	PRSS3	79	.	NM_007343	exon2	c.G244A	p.V82I	AAGATTGTTGGGG	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549540	32549540	+	Missense_Mutation	SNP	C	C	T	rs74626234	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	520	103	295	0	0.198077	0	C|0.844;T|0.156	0.156	strong	HLA-DRB1,NS,carcinoma,-1,1	HLA-DRB1	41	1	NM_002124	exon3	c.G446A	p.S149N	AAACCACTCACAG	.	PASS	Atlas-SNP
FLJ44635	0	hgsc.bcm.edu	37	X	71379702	71379702	+	Missense_Mutation	SNP	T	T	C	rs7884806	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	107	188	0	0.990741	0	0|0.005;C|0.369	0.369	strong	.	FLJ44635	13	.	NM_207422	exon2	c.T23C	p.I8T	TGATTATCTACTG	.	PASS	Atlas-SNP
LILRA3	11026	hgsc.bcm.edu	37	19	54802693	54802693	+	Missense_Mutation	SNP	C	C	T	rs73055462	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	163	343	1	0.987879	0.00291545	C|0.944;T|0.056	0.056	strong	.	LILRA3	65	.	NM_006865	exon5	c.G748A	p.A250T	AGCCGGCATCAGA	.	PASS	Atlas-SNP
LAPTM5	7805	hgsc.bcm.edu	37	1	31208042	31208042	+	Missense_Mutation	SNP	C	C	T	rs35351292	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	26	62	0	0.393939	0	T|0.179;G|0.000;C|0.821	0.179	strong	.	LAPTM5	30	.	NM_006762	exon7	c.G677A	p.R226K	GAGTTTCTCTTCT	.	PASS	Atlas-SNP
PDXDC1	23042	hgsc.bcm.edu	37	16	15095675	15095675	+	Silent	SNP	C	C	A	rs9921162	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	67	146	0	0.34715	0	C|0.773;A|0.227	0.227	strong	PDXDC1,NS,carcinoma,0,1	PDXDC1	59	1	NM_015027	exon4	c.C204A	p.L68L	GAATCTCATGCAT	.	PASS	Atlas-SNP
PNLIPRP3	119548	hgsc.bcm.edu	37	10	118231363	118231363	+	Missense_Mutation	SNP	A	A	G	rs1897519	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	171	181	0	0.994186	0	A|0.029;G|0.971	0.971	strong	.	PNLIPRP3	101	.	NM_001011709	exon10	c.A1144G	p.R382G	GCAGTTAGGAAAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	82	94	0	0.594203	0	G|0.766;A|0.234	0.234	strong	.	SELL	43	.	NM_000655	exon5	c.C676T	p.P226S	CCAAAGGGTGAGT	.	PASS	Atlas-SNP
SELE	6401	hgsc.bcm.edu	37	1	169695870	169695870	+	Missense_Mutation	SNP	G	G	A	rs5355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	74	152	0	0.521127	0	G|0.963;A|0.037	0.037	strong	SELE,rectum,carcinoma,0,1	SELE	84	1	NM_000450	exon11	c.C1723T	p.L575F	AGAGGAGAAATGG	.	PASS	Atlas-SNP
KCNA5	3741	hgsc.bcm.edu	37	12	5154064	5154064	+	Missense_Mutation	SNP	G	G	A	rs12720442	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	47	91	0	0.456311	0	G|0.990;A|0.010	0.010	strong	KCNA5,brain,glioma,0,1	KCNA5	138	1	NM_002234	exon1	c.G751A	p.A251T	GCGCGGGCCATCG	.	PASS	Atlas-SNP
ST14	6768	hgsc.bcm.edu	37	11	130060453	130060453	+	Missense_Mutation	SNP	G	G	A	rs144266633	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	29	106	0	0.644444	0	G|1.000;A|0.000	0.000	strong	.	ST14	82	.	NM_021978	exon7	c.G739A	p.A247T	CAGTGGGCCCTGC	.	PASS	Atlas-SNP
MIA3	375056	hgsc.bcm.edu	37	1	222803204	222803204	+	Missense_Mutation	SNP	A	A	G	rs2936051	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	123	118	0	0.984	0	A|0.748;G|0.252	0.252	strong	.	MIA3	167	.	NM_198551	exon4	c.A2642G	p.E881G	ACCATGAGAACAC	.	PASS	Atlas-SNP
RGAG4	340526	hgsc.bcm.edu	37	X	71349753	71349753	+	Silent	SNP	G	G	A	rs12397326	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	49	98	0	1	0	G|0.616;A|0.384	0.384	strong	.	RGAG4	63	.	NM_001024455	exon1	c.C1638T	p.R546R	AGGGGGGCGTCTT	.	PASS	Atlas-SNP
ATP8B3	148229	hgsc.bcm.edu	37	19	1806667	1806667	+	Missense_Mutation	SNP	C	C	T	rs45574836	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	36	78	0	0.349515	0	C|0.941;T|0.059	0.059	strong	.	ATP8B3	108	.	NM_138813	exon7	c.G637A	p.A213T	TGATGGCTCTGTC	.	PASS	Atlas-SNP
SPATA13	221178	hgsc.bcm.edu	37	13	24823699	24823699	+	Missense_Mutation	SNP	G	G	A	rs41287016	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	81	116	0	0.586957	0	G|0.953;A|0.047	0.047	strong	.	SPATA13	92	.	NM_001166271	exon3	c.G1738A	p.G580S	AGATGGGGCTCTG	.	PASS	Atlas-SNP
MCM7	4176	hgsc.bcm.edu	37	7	99696797	99696797	+	Missense_Mutation	SNP	T	T	C	rs2070215	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	65	129	1	0.485075	0.00775194	T|0.798;C|0.202	0.202	strong	MCM7_ENST00000303887,NS,carcinoma,0,1	MCM7	136	1	NM_005916	exon5	c.A431G	p.N144S	GGCTTGTTGCTGC	.	scavenged	Atlas-SNP
ZNF107	51427	hgsc.bcm.edu	37	7	64166802	64166802	+	Missense_Mutation	SNP	G	G	T	rs73138709	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	87	116	0	0.480663	0	G|0.969;T|0.031	0.031	strong	.	ZNF107	107	.	NM_016220	exon7	c.G120T	p.E40D	ATATGAGAATTTA	.	PASS	Atlas-SNP
C3orf62	375341	hgsc.bcm.edu	37	3	49313978	49313978	+	Missense_Mutation	SNP	C	C	T	rs13077498	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	247	101	231	0	0.408907	0	C|0.907;T|0.093	0.093	strong	.	C3orf62	23	.	NM_198562	exon1	c.G328A	p.E110K	TTCTCTCGGGGCA	.	PASS	Atlas-SNP
CAMTA2	23125	hgsc.bcm.edu	37	17	4875566	4875566	+	Silent	SNP	T	T	C	rs238230	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	32	67	0	0.477612	0	T|0.359;C|0.641	0.641	strong	.	CAMTA2	93	.	NM_001171167	exon16	c.A2838G	p.P946P	GTCCTCTGGAGCA	.	PASS	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4825307	4825307	+	Missense_Mutation	SNP	T	T	A	rs11772411	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	17	9	45	0	0.529412	0	T|0.956;A|0.044	0.044	strong	.	.	.	.	NM_014855	exon9	c.T1124A	p.L375Q	TCTTCCTGAGCCA	.	PASS	Atlas-SNP
OR2M2	391194	hgsc.bcm.edu	37	1	248343543	248343543	+	Silent	SNP	C	C	T	rs9435919	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	412	409	381	0	0.992718	0	C|0.384;T|0.616	0.616	strong	.	OR2M2	149	.	NM_001004688	exon1	c.C256T	p.L86L	AACTACCTGTCTG	.	PASS	Atlas-SNP
PRSS55	203074	hgsc.bcm.edu	37	8	10383138	10383138	+	Missense_Mutation	SNP	G	G	A	rs35102108	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	66	111	0	0.471429	0	G|0.834;A|0.166	0.166	strong	.	PRSS55	67	.	NM_001197020	exon1	c.G43A	p.G15R	GTCACGGGAACTC	.	PASS	Atlas-SNP
FER1L6	654463	hgsc.bcm.edu	37	8	125035788	125035788	+	Silent	SNP	G	G	C	rs4358790	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	73	137	0	0.483444	0	G|0.427;C|0.573	0.573	strong	FER1L6,NS,carcinoma,0,2	FER1L6	268	2	NM_001039112	exon18	c.G2238C	p.A746A	TGTCGCGGGGCAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	60	124	0	0.487805	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
RBM14	10432	hgsc.bcm.edu	37	11	66392880	66392880	+	Silent	SNP	C	C	T	rs11550057	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	63	135	0	0.496063	0	C|0.902;T|0.098	0.098	strong	.	RBM14	59	.	NM_006328	exon2	c.C1533T	p.T511T	TGCCACCCTGGCA	.	PASS	Atlas-SNP
ATG10	83734	hgsc.bcm.edu	37	5	81549240	81549240	+	Missense_Mutation	SNP	C	C	A	rs1864182	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	124	121	0	1	0	C|0.500;N|0.000	.	strong	.	ATG10	23	.	NM_001131028	exon8	c.C659A	p.P220H	ATGTCCCTTAACA	.	PASS	Atlas-SNP
SEPT14	346288	hgsc.bcm.edu	37	7	55902230	55902230	+	Missense_Mutation	SNP	T	T	C	rs146004414	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	55	108	0	0.478261	0	T|0.988;C|0.012	0.012	strong	.	SEPT14	58	.	NM_207366	exon6	c.A608G	p.D203G	TGTAAATCATTTT	.	PASS	Atlas-SNP
KCNH5	27133	hgsc.bcm.edu	37	14	63175012	63175012	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	67	156	0	0.41875	0	.	.	none	KCNH5,NS,carcinoma,-1,1	KCNH5	320	1	NM_139318	exon11	c.T2181C	p.G727G	AGGGTCACCCTGT	.	PASS	Atlas-SNP
SLC13A3	64849	hgsc.bcm.edu	37	20	45204266	45204266	+	Silent	SNP	G	G	A	rs1880898	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	53	123	0	0.456897	0	G|0.419;T|0.006	.	strong	.	SLC13A3	88	.	NM_022829	exon10	c.C1278T	p.P426P	GTTCCAGGGCACT	.	PASS	Atlas-SNP
SEC11A	23478	hgsc.bcm.edu	37	15	85234858	85234858	+	Silent	SNP	T	T	C	rs369852123		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	45	77	0	0.584416	0	.	.	weak	.	SEC11A	8	.	NM_014300	exon2	c.A69G	p.L23L	AAAATTTAGGACT	.	PASS	Atlas-SNP
USP4	7375	hgsc.bcm.edu	37	3	49343175	49343175	+	Silent	SNP	G	G	A	rs2230929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	88	212	0	0.478261	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
WDR81	124997	hgsc.bcm.edu	37	17	1640709	1640709	+	Silent	SNP	C	C	T	rs1045794	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	88	120	2	0.508671	0.0166667	C|0.826;N|0.001	.	strong	WDR81_ENST00000437219,NS,carcinoma,+1,3	WDR81	180	3	NM_001163809	exon10	c.C5556T	p.T1852T	CTTGACCGTCTGG	.	scavenged	Atlas-SNP
HK3	3101	hgsc.bcm.edu	37	5	176309082	176309082	+	Silent	SNP	C	C	T	rs34127573	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	82	121	0	0.630769	0	C|0.992;T|0.008	0.008	strong	.	HK3	210	.	NM_002115	exon16	c.G2100A	p.A700A	CACGCCCGCCACA	.	PASS	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49221885	49221885	+	Silent	SNP	T	T	A	rs202680	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	70	142	0	0.526316	0	T|0.646;A|0.354	0.354	strong	.	FOLH1	141	.	NM_004476	exon3	c.A333T	p.A111A	ATAATGTGCTAGC	.	PASS	Atlas-SNP
TBC1D5	9779	hgsc.bcm.edu	37	3	17255768	17255768	+	Silent	SNP	T	T	C	rs116772060	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	44	95	0	0.463158	0	T|0.974;C|0.026	0.026	strong	.	TBC1D5	69	.	NM_001134381	exon20	c.A1749G	p.K583K	ATCTTTTTTAGTA	.	PASS	Atlas-SNP
PLA2G2C	391013	hgsc.bcm.edu	37	1	20501582	20501582	+	Nonsense_Mutation	SNP	G	G	A	rs12139100	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	100	220	0	0.628931	0	G|0.802;A|0.198	0.198	strong	.	PLA2G2C	21	.	NM_001105572	exon1	c.C106T	p.R36X	CACTTCGCCCCGT	.	PASS	Atlas-SNP
HTR5A	3361	hgsc.bcm.edu	37	7	154862652	154862652	+	Missense_Mutation	SNP	C	C	T	rs11575874	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	35	69	0	0.744681	0	C|0.956;T|0.044	0.044	strong	HTR5A,NS,carcinoma,-2,1	HTR5A	114	1	NM_024012	exon1	c.C43T	p.P15S	TCCACCCCCTCCC	.	PASS	Atlas-SNP
IL22RA1	58985	hgsc.bcm.edu	37	1	24447468	24447468	+	Missense_Mutation	SNP	G	G	C	rs3795299	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	198	198	0	0.99	0	G|0.599;C|0.401	0.401	strong	.	IL22RA1	62	.	NM_021258	exon7	c.C1552G	p.R518G	ATGGACGGGAAGG	.	PASS	Atlas-SNP
CCDC107	203260	hgsc.bcm.edu	37	9	35660872	35660872	+	Silent	SNP	C	C	T	rs141349284	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	36	64	0	0.45	0	C|1.000;T|0.000	0.000	strong	.	CCDC107	12	.	NM_174923	exon5	c.C540T	p.G180G	GGGAGGCGAGTCT	.	PASS	Atlas-SNP
PRG3	10394	hgsc.bcm.edu	37	11	57148175	57148175	+	Missense_Mutation	SNP	A	A	G	rs669661	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	232	234	0	0.995708	0	A|0.049;G|0.951	0.951	strong	.	PRG3	35	.	NM_006093	exon2	c.T7C	p.C3R	AGAGGCATTGCAT	.	PASS	Atlas-SNP
UBE2D2	7322	hgsc.bcm.edu	37	5	139002976	139002976	+	Silent	SNP	T	T	C	rs61760192	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	138	178	1	0.715026	0.00561798	T|0.995;C|0.005	0.005	strong	.	UBE2D2	17	.	NM_003339	exon6	c.T328C	p.L110L	TCTCTGTTGTGTG	.	PASS	Atlas-SNP
VPS37C	55048	hgsc.bcm.edu	37	11	60899815	60899815	+	Missense_Mutation	SNP	A	A	T	rs2232142	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	80	149	0	0.516129	0	A|0.958;T|0.042	0.042	strong	VPS37C,colon,carcinoma,0,1	VPS37C	30	1	NM_017966	exon5	c.T545A	p.V182D	TGGGGGACTGGGC	.	PASS	Atlas-SNP
MUTYH	4595	hgsc.bcm.edu	37	1	45800156	45800156	+	Missense_Mutation	SNP	C	C	T	rs3219484	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	111	221	0	0.620112	0	T|0.042;G|0.006	0.042	strong	.	MUTYH	38	.	NM_012222	exon2	c.G64A	p.V22M	TTCCCACGGCTGC	.	PASS	Atlas-SNP
SLC22A9	114571	hgsc.bcm.edu	37	11	63175593	63175593	+	Missense_Mutation	SNP	C	C	T	rs61742518	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	40	69	0	0.465116	0	C|0.982;T|0.018	0.018	strong	.	SLC22A9	77	.	NM_080866	exon8	c.C1298T	p.T433M	TGCAGACGCTGCG	.	PASS	Atlas-SNP
BARD1	580	hgsc.bcm.edu	37	2	215632256	215632256	+	Silent	SNP	A	A	G	rs2070093	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	200	211	0	1	0	A|0.259;G|0.741	0.741	strong	.	BARD1	138	.	NM_000465	exon6	c.T1518C	p.H506H	ATCCACATGCCCA	.	PASS	Atlas-SNP
CGNL1	84952	hgsc.bcm.edu	37	15	57731384	57731384	+	Missense_Mutation	SNP	G	G	T	rs148544821	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	46	128	0	0.4	0	G|0.998;T|0.002	0.002	strong	.	CGNL1	125	.	NM_032866	exon2	c.G1187T	p.G396V	CTTTTGGCCTCCA	.	PASS	Atlas-SNP
CAND1	55832	hgsc.bcm.edu	37	12	67706466	67706466	+	Silent	SNP	G	G	A	rs1060350	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	79	137	1	0.544828	0.00729927	G|0.539;A|0.461	0.461	strong	CAND1,NS,carcinoma,0,1	CAND1	100	1	NM_018448	exon15	c.G3549A	p.L1183L	AGCACTGCTAACC	.	scavenged	Atlas-SNP
UNC5C	8633	hgsc.bcm.edu	37	4	96171681	96171681	+	Silent	SNP	A	A	G	rs34875919	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244	113	219	0	0.463115	0	A|0.956;G|0.044	0.044	strong	.	UNC5C	141	.	NM_003728	exon5	c.T732C	p.I244I	GGCAACAATGTTT	.	PASS	Atlas-SNP
BUD13	84811	hgsc.bcm.edu	37	11	116633862	116633862	+	Missense_Mutation	SNP	G	G	A	rs11820589	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	47	105	0	0.460784	0	G|0.905;A|0.095	0.095	strong	.	BUD13	41	.	NM_001159736	exon4	c.C443T	p.P148L	GGATCCGGGGTGT	.	PASS	Atlas-SNP
MIOX	55586	hgsc.bcm.edu	37	22	50926768	50926768	+	Silent	SNP	C	C	T	rs2232883	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	61	100	0	0.616162	0	C|0.878;T|0.122	0.122	strong	.	MIOX	21	.	NM_017584	exon5	c.C405T	p.P135P	GGAGCCCCAGGTA	.	PASS	Atlas-SNP
NOX3	50508	hgsc.bcm.edu	37	6	155774608	155774608	+	Silent	SNP	C	C	T	rs34960420	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	90	200	0	0.44335	0	C|0.888;T|0.112	0.112	strong	.	NOX3	93	.	NM_015718	exon4	c.G270A	p.P90P	CCTCCACGGTCCT	.	PASS	Atlas-SNP
DSC1	1823	hgsc.bcm.edu	37	18	28734749	28734749	+	Silent	SNP	A	A	G	rs2249810	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	47	62	0	1	0	G|0.484;N|0.000	0.484	strong	.	DSC1	240	.	NM_004948	exon5	c.T615C	p.Y205Y	CTGTTCATATTTC	.	PASS	Atlas-SNP
PLXDC1	57125	hgsc.bcm.edu	37	17	37224211	37224211	+	Missense_Mutation	SNP	C	C	T	rs75117355	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	80	168	0	0.42328	0	C|0.927;T|0.073	0.073	strong	.	PLXDC1	45	.	NM_020405	exon14	c.G1385A	p.R462H	GGTCTACGCTGCA	.	PASS	Atlas-SNP
CBWD6	644019	hgsc.bcm.edu	37	9	69256816	69256816	+	Silent	SNP	G	G	A	rs62557779	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1626	523	2677	2	0.321648	0.000747105	G|0.525;A|0.475	0.475	strong	.	CBWD6	19	.	NM_001085457	exon3	c.C315T	p.N105N	GCAACCGTTTCTA	.	PASS	Atlas-SNP
SCUBE2	57758	hgsc.bcm.edu	37	11	9069046	9069046	+	Missense_Mutation	SNP	G	G	A	rs3751055	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	93	189	0	0.462687	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
SLC6A15	55117	hgsc.bcm.edu	37	12	85277561	85277561	+	Missense_Mutation	SNP	T	T	A	rs17183577	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	72	163	0	0.483221	0	T|0.862;A|0.138	0.138	strong	.	SLC6A15	159	.	NM_018057	exon5	c.A833T	p.D278V	CAGAAATCTGTAA	.	PASS	Atlas-SNP
ZNF683	257101	hgsc.bcm.edu	37	1	26688181	26688181	+	Silent	SNP	G	G	C	rs11583897	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	42	99	0	0.75	0	G|0.907;C|0.093	0.093	strong	.	ZNF683	51	.	NM_173574	exon6	c.C1476G	p.A492A	AGTCCCGGCACTG	.	PASS	Atlas-SNP
PHF19	26147	hgsc.bcm.edu	37	9	123632045	123632045	+	Silent	SNP	A	A	G	rs1056567	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	51	117	0	0.404762	0	A|0.383;G|0.617	0.617	strong	PHF19_ENST00000312189,NS,carcinoma,0,1	PHF19	47	1	NM_001009936	exon5	c.T543C	p.S181S	GCTCAGACTCTGT	.	PASS	Atlas-SNP
APIP	51074	hgsc.bcm.edu	37	11	34910397	34910397	+	Missense_Mutation	SNP	C	C	T	rs1977420	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	53	55	0	0.946429	0	C|0.611;T|0.389	0.389	strong	.	APIP	21	.	NM_015957	exon4	c.G227A	p.C76Y	ATATCACAAACAA	.	PASS	Atlas-SNP
EIF4ENIF1	56478	hgsc.bcm.edu	37	22	31836696	31836696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	3	122	0	0.0227273	0	.	.	none	EIF4ENIF1,colon,carcinoma,+1,1	EIF4ENIF1	80	1	NM_019843	exon18	c.C2710T	p.R904C	CTGAGCGCTGTAG	.	scavenged	Atlas-SNP
BTN1A1	696	hgsc.bcm.edu	37	6	26509382	26509382	+	Missense_Mutation	SNP	C	C	T	rs35555795	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	50	76	0	0.403226	0	C|0.934;T|0.066	0.066	strong	.	BTN1A1	68	.	NM_001732	exon7	c.C1561T	p.P521S	ACCCAACCCAGCC	.	PASS	Atlas-SNP
SUMF2	25870	hgsc.bcm.edu	37	7	56136194	56136194	+	Silent	SNP	C	C	T	rs7808729	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	74	149	0	0.521127	0	C|0.832;T|0.168	0.168	strong	.	SUMF2	56	.	NM_015411	exon2	c.C144T	p.S48S	TACTAGCATGGTC	.	PASS	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136305530	136305530	+	Missense_Mutation	SNP	C	C	G	rs28647808	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	60	100	0	0.392157	0	C|0.939;G|0.061	0.061	strong	.	ADAMTS13	113	.	NM_139027	exon16	c.C1852G	p.P618A	ACCTACCCCTCCC	.	PASS	Atlas-SNP
SLC5A11	115584	hgsc.bcm.edu	37	16	24918048	24918048	+	Missense_Mutation	SNP	C	C	T	rs17772929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	43	103	0	0.457447	0	C|0.678;T|0.322	0.322	strong	SLC5A11,NS,carcinoma,0,1	SLC5A11	97	1	NM_001258414	exon10	c.C679T	p.R227C	GGACATCGCGTAT	.	PASS	Atlas-SNP
ZNF117	51351	hgsc.bcm.edu	37	7	64439613	64439613	+	Missense_Mutation	SNP	T	T	G	rs3807068	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	123	113	0	1	0	T|0.611;G|0.389	0.389	strong	ZNF117,NS,carcinoma,0,1	ZNF117	56	1	NM_015852	exon4	c.A336C	p.K112N	ACATTCTTTACAT	.	PASS	Atlas-SNP
ATP5S	27109	hgsc.bcm.edu	37	14	50788213	50788213	+	Missense_Mutation	SNP	C	C	T	rs2275592	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	100	192	0	0.518135	0	C|0.434;T|0.566	0.566	strong	ATP5S,NS,carcinoma,0,1	ATP5S	28	1	NM_015684	exon2	c.C53T	p.P18L	TGATGCCGTTTGG	.	PASS	Atlas-SNP
SLC39A8	64116	hgsc.bcm.edu	37	4	103189036	103189036	+	Silent	SNP	G	G	A	rs17823966	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	30	66	0	0.428571	0	G|0.970;A|0.030	0.030	strong	SLC39A8,NS,carcinoma,0,1	SLC39A8	24	1	NM_022154	exon6	c.C1041T	p.H347H	TAACTCGTGGGGA	.	PASS	Atlas-SNP
CACNA1A	773	hgsc.bcm.edu	37	19	13482554	13482554	+	Silent	SNP	C	C	T	rs41276894	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	60	150	0	0.441176	0	C|0.994;T|0.006	0.006	strong	.	CACNA1A	715	.	NM_001127221	exon4	c.G579A	p.T193T	CCTCAGCGTCCGT	.	PASS	Atlas-SNP
ECD	11319	hgsc.bcm.edu	37	10	74894526	74894526	+	Missense_Mutation	SNP	A	A	C	rs35331959	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	67	169	0	0.41875	0	A|0.991;C|0.009	0.009	strong	.	ECD	50	.	NM_001135752	exon15	c.T1849G	p.S617A	TACCAGAATCTTC	.	PASS	Atlas-SNP
PIK3R5	23533	hgsc.bcm.edu	37	17	8792171	8792171	+	Silent	SNP	T	T	C	rs11650737	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	15	15	0	1	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
C11orf48	79081	hgsc.bcm.edu	37	11	62437422	62437422	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	94	182	0	0.477157	0	.	.	none	.	C11orf48	18	.	NM_024099	exon2	c.C82T	p.P28S	GCCTGGGACTTTC	.	PASS	Atlas-SNP
RSPH1	89765	hgsc.bcm.edu	37	21	43905887	43905887	+	Silent	SNP	C	C	T	rs2839536	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	118	148	0	0.983333	0	C|0.704;T|0.296	0.296	strong	.	RSPH1	36	.	NM_080860	exon5	c.G393A	p.A131A	CGTCTCCGCGTAT	.	PASS	Atlas-SNP
C12orf54	121273	hgsc.bcm.edu	37	12	48888689	48888689	+	Silent	SNP	C	C	G	rs9268	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	52	97	0	0.444444	0	C|0.533;G|0.467	0.467	strong	.	C12orf54	11	.	NM_152319	exon8	c.C351G	p.L117L	ACAGCTCTTCAGT	.	PASS	Atlas-SNP
LRRN1	57633	hgsc.bcm.edu	37	3	3887093	3887093	+	Silent	SNP	A	A	G	rs9844909	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	39	77	0	0.443182	0	A|0.775;G|0.225	0.225	strong	.	LRRN1	82	.	NM_020873	exon2	c.A768G	p.Q256Q	CCCTCAACTTGCC	.	PASS	Atlas-SNP
CDH4	1002	hgsc.bcm.edu	37	20	60509209	60509209	+	Silent	SNP	C	C	T	rs3753045	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	43	85	0	0.661538	0	C|0.826;T|0.174	0.174	strong	CDH4,colon,carcinoma,0,1	CDH4	172	1	NM_001794	exon15	c.C2475T	p.G825G	GGTGGGCGCTGAG	.	PASS	Atlas-SNP
PRDM10	56980	hgsc.bcm.edu	37	11	129801124	129801124	+	Silent	SNP	T	T	C	rs2277032	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	81	152	0	0.445055	0	T|0.928;C|0.072	0.072	strong	.	PRDM10	120	.	NM_020228	exon11	c.A1317G	p.Q439Q	ATCAAATTGCTCC	.	PASS	Atlas-SNP
AHSA1	10598	hgsc.bcm.edu	37	14	77935520	77935520	+	Silent	SNP	G	G	A	rs7250	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	95	152	0	0.489691	0	G|0.558;A|0.442	0.442	strong	.	AHSA1	24	.	NM_012111	exon9	c.G945A	p.T315T	GCGGACGCGACAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	380	377	344	1	0.992105	0.00290698	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
ZNF79	7633	hgsc.bcm.edu	37	9	130206762	130206762	+	Silent	SNP	C	C	T	rs2248025	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	38	64	0	0.44186	0	C|0.612;T|0.388	0.388	strong	ZNF79,NS,carcinoma,0,1	ZNF79	47	1	NM_007135	exon5	c.C783T	p.N261N	CCAGAACGCCAAC	.	PASS	Atlas-SNP
CHD2	1106	hgsc.bcm.edu	37	15	93567864	93567864	+	Silent	SNP	A	A	C	rs12906163	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	94	192	0	0.472362	0	A|0.767;C|0.233	0.233	strong	.	CHD2	280	.	NM_001271	exon39	c.A5416C	p.R1806R	GATCATAGGTCTC	.	PASS	Atlas-SNP
ANKRD18B	441459	hgsc.bcm.edu	37	9	33568789	33568789	+	Silent	SNP	T	T	G	rs10971566	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	76	136	0	0.567164	0	T|0.756;G|0.244	0.244	strong	.	ANKRD18B	46	.	NM_001244752	exon15	c.T2886G	p.L962L	AAATCTTAATAGT	.	PASS	Atlas-SNP
RBM47	54502	hgsc.bcm.edu	37	4	40428010	40428010	+	Missense_Mutation	SNP	T	T	C	rs278981	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	122	139	1	0.983871	0.00719424	T|0.287;G|0.002	.	strong	.	RBM47	146	.	NM_001098634	exon7	c.A1693G	p.M565V	CATACATGGCGGC	.	PASS	Atlas-SNP
TAS2R31	259290	hgsc.bcm.edu	37	12	11183286	11183286	+	Missense_Mutation	SNP	G	G	C	rs10845294	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	98	239	0	0.420601	0	G|0.834;C|0.166	0.166	strong	.	TAS2R31	24	.	NM_176885	exon1	c.C649G	p.Q217E	GATCTTGAGATCC	.	PASS	Atlas-SNP
KANK1	23189	hgsc.bcm.edu	37	9	712137	712137	+	Silent	SNP	G	G	C	rs912175	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	34	73	0	0.53125	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
NDOR1	27158	hgsc.bcm.edu	37	9	140110555	140110555	+	Missense_Mutation	SNP	G	G	A	rs62587579	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	43	74	0	0.457447	0	G|0.962;A|0.038	0.038	strong	.	NDOR1	71	.	NM_001144026	exon13	c.G1591A	p.V531I	CAGAAAGTATATG	.	PASS	Atlas-SNP
HAUS3	79441	hgsc.bcm.edu	37	4	2233709	2233709	+	Missense_Mutation	SNP	A	A	G	rs11937432	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	317	147	320	1	0.463722	0.003125	A|0.928;G|0.072	0.072	strong	.	HAUS3	54	.	NM_024511	exon5	c.T1757C	p.I586T	TCCACAATATCTT	.	PASS	Atlas-SNP
NACAD	23148	hgsc.bcm.edu	37	7	45122723	45122723	+	Missense_Mutation	SNP	G	G	A	rs61740895	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	55	102	0	0.474138	0	G|0.739;A|0.261	0.261	strong	.	NACAD	44	.	NM_001146334	exon2	c.C3056T	p.A1019V	GAATCCGCATCTT	.	PASS	Atlas-SNP
CEP85L	387119	hgsc.bcm.edu	37	6	118887303	118887303	+	Missense_Mutation	SNP	T	T	C	rs3734381	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	135	272	1	0.592105	0.00367647	T|0.510;C|0.490	0.490	strong	C6orf204,NS,carcinoma,0,1	CEP85L	26	1	NM_001178035	exon4	c.A418G	p.S140G	CCCTACTGTGGTT	.	PASS	Atlas-SNP
OBP2A	29991	hgsc.bcm.edu	37	9	138440554	138440554	+	Missense_Mutation	SNP	G	G	C	rs55695858	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	74	185	0	0.45679	0	G|0.790;C|0.210	0.210	strong	.	OBP2A	21	.	NM_014582	exon5	c.G389C	p.G130A	CTGCAGGTAGGAA	.	PASS	Atlas-SNP
CPEB1	64506	hgsc.bcm.edu	37	15	83215251	83215251	+	Silent	SNP	T	T	C	rs1267657	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	97	159	0	0.461905	0	T|0.579;C|0.421	0.421	strong	.	CPEB1	114	.	NM_030594	exon11	c.A1515G	p.L505L	ATCTTCTAGGTAG	.	PASS	Atlas-SNP
CCDC150	284992	hgsc.bcm.edu	37	2	197521496	197521496	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	2	132	0	0.0150376	0	.	.	none	CCDC150,NS,carcinoma,-1,1	CCDC150	96	1	NM_001080539	exon3	c.C316T	p.R106C	ATGTGCCGTCTTG	.	scavenged	Atlas-SNP
FSD2	123722	hgsc.bcm.edu	37	15	83428193	83428193	+	Silent	SNP	G	G	A	rs1108135	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	32	69	0	0.390244	0	G|0.816;A|0.184	0.184	strong	.	FSD2	45	.	NM_001007122	exon13	c.C2157T	p.H719H	AAATTCGTGAAGC	.	PASS	Atlas-SNP
COPS7A	50813	hgsc.bcm.edu	37	12	6839913	6839913	+	Silent	SNP	C	C	T	rs2286730	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	60	115	0	0.48	0	C|0.879;T|0.121	0.121	strong	.	COPS7A	26	.	NM_001164094	exon7	c.C715T	p.L239L	CAACACCTGACTG	.	PASS	Atlas-SNP
WDR41	55255	hgsc.bcm.edu	37	5	76734084	76734084	+	Missense_Mutation	SNP	C	C	T	rs33204	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	112	116	0	1	0	C|0.490;T|0.510	0.510	strong	.	WDR41	29	.	NM_018268	exon10	c.G985A	p.V329I	TGGCAACGTGCAG	.	PASS	Atlas-SNP
OR51F1	256892	hgsc.bcm.edu	37	11	4791111	4791111	+	Missense_Mutation	SNP	T	T	C	rs17324812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	204	193	1	0.980769	0.00518135	T|0.834;C|0.166	0.166	strong	.	OR51F1	60	.	NM_001004752	exon1	c.A37G	p.T13A	AGAAGGTTGGAAA	.	PASS	Atlas-SNP
ENPP5	59084	hgsc.bcm.edu	37	6	46135984	46135984	+	Missense_Mutation	SNP	G	G	T	rs3806995	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	31	68	0	0.397436	0	G|0.573;T|0.427	0.427	strong	.	ENPP5	44	.	NM_021572	exon2	c.C16A	p.L6I	CCAAGAGAAATTT	.	PASS	Atlas-SNP
SLC25A31	83447	hgsc.bcm.edu	37	4	128689936	128689936	+	Silent	SNP	A	A	G	rs2305958	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	82	85	0	0.97619	0	A|0.472;G|0.528	0.528	strong	SLC25A31,colon,carcinoma,+1,1	SLC25A31	42	1	NM_031291	exon5	c.A663G	p.P221P	AACTCCATTTCTT	.	PASS	Atlas-SNP
RALGDS	5900	hgsc.bcm.edu	37	9	135985796	135985796	+	Silent	SNP	C	C	T	rs3761824	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	25	53	0	0.396825	0	C|0.754;T|0.246	0.246	strong	.	RALGDS	75	.	NM_006266	exon3	c.G375A	p.V125V	GTGCTCCACCAGC	.	PASS	Atlas-SNP
KIAA0020	9933	hgsc.bcm.edu	37	9	2811505	2811505	+	Silent	SNP	G	G	A	rs2270888	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	90	112	0	1	0	A|0.416;C|0.000;G|0.584;T|0.000	0.416	strong	.	KIAA0020	56	.	NM_014878	exon15	c.C1491T	p.H497H	TTGGGCGTGTTCT	.	PASS	Atlas-SNP
ZNF665	79788	hgsc.bcm.edu	37	19	53667940	53667940	+	Silent	SNP	A	A	G	rs12459471	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	47	93	0	0.474747	0	A|0.473;G|0.527	0.527	strong	.	ZNF665	136	.	NM_024733	exon4	c.T1803C	p.N601N	ACATTCATTACAT	.	PASS	Atlas-SNP
COMMD2	51122	hgsc.bcm.edu	37	3	149468530	149468530	+	Missense_Mutation	SNP	T	T	G	rs9843784	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	153	204	0	0.577358	0	T|0.704;G|0.296	0.296	strong	.	COMMD2	21	.	NM_016094	exon4	c.A337C	p.I113L	TCAGAATCGTTCT	.	PASS	Atlas-SNP
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240804	39240804	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	9	106	1	0.0833333	0.00943396	.	.	none	KRTAP4-7,caecum,carcinoma,0,1	KRTAP4-7	49	1	NM_033061	exon1	c.C346A	p.R116S	TGCTGCCGCCCCT	.	scavenged	Atlas-SNP
OR2D2	120776	hgsc.bcm.edu	37	11	6913127	6913127	+	Missense_Mutation	SNP	A	A	G	rs2741804	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	92	162	0	0.567901	0	G|0.425;N|0.001	0.425	strong	.	OR2D2	52	.	NM_003700	exon1	c.T605C	p.M202T	ACCCCCATAAGAA	.	PASS	Atlas-SNP
IFIT2	3433	hgsc.bcm.edu	37	10	91066977	91066977	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	3	127	0	0.0241935	0	.	.	none	IFIT2,colon,carcinoma,0,1	IFIT2	39	1	NM_001547	exon2	c.C1264T	p.R422X	AAAATGCGACTTT	.	scavenged	Atlas-SNP
SPTBN1	6711	hgsc.bcm.edu	37	2	54858214	54858214	+	Silent	SNP	A	A	G	rs61730127	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	48	80	0	0.461538	0	A|0.949;G|0.051;T|0.000	0.051	strong	.	SPTBN1	378	.	NM_003128	exon16	c.A3030G	p.A1010A	TGAGGCAAAGCTG	.	PASS	Atlas-SNP
TBX18	9096	hgsc.bcm.edu	37	6	85473758	85473758	+	Missense_Mutation	SNP	C	C	T	rs172562	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	14	29	0	0.636364	0	C|0.605;T|0.395	0.395	strong	TBX18,NS,carcinoma,0,1	TBX18	131	1	NM_001080508	exon1	c.G142A	p.G48R	CGGCCCCCGCCGC	.	PASS	Atlas-SNP
MYBPC2	4606	hgsc.bcm.edu	37	19	50967640	50967640	+	Missense_Mutation	SNP	G	G	A	rs25667	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	20	60	0	0.465116	0	A|0.143;C|0.000;G|0.857	0.143	strong	.	MYBPC2	103	.	NM_004533	exon27	c.G3266A	p.R1089H	AAATCCGTGAAGA	.	PASS	Atlas-SNP
ZNF280A	129025	hgsc.bcm.edu	37	22	22868493	22868493	+	Missense_Mutation	SNP	G	G	T	rs361666	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	66	110	0	0.471429	0	G|0.469;T|0.531	0.531	strong	.	ZNF280A	67	.	NM_080740	exon2	c.C1462A	p.R488S	TTTCACGAGGGAA	.	PASS	Atlas-SNP
PNPLA7	375775	hgsc.bcm.edu	37	9	140438216	140438216	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	74	150	0	0.432749	0	.	.	none	.	PNPLA7	124	.	NM_001098537	exon5	c.C325T	p.R109W	TGGCCCGCTGCCG	.	PASS	Atlas-SNP
SLC26A6	65010	hgsc.bcm.edu	37	3	48669447	48669447	+	Missense_Mutation	SNP	C	C	T	rs13324142	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	82	128	0	0.565517	0	C|0.888;T|0.112	0.112	strong	.	SLC26A6	45	.	NM_022911	exon6	c.G616A	p.V206M	TGACCACGAAGCC	.	PASS	Atlas-SNP
SLC38A9	153129	hgsc.bcm.edu	37	5	54960687	54960687	+	Silent	SNP	C	C	T	rs4865616	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	90	182	0	0.45	0	C|0.428;T|0.572	0.572	strong	SLC38A9,rectum,carcinoma,-1,1	SLC38A9	50	1	NM_173514	exon8	c.G531A	p.S177S	ATCCAACGAAACT	.	PASS	Atlas-SNP
PCDHGB7	56099	hgsc.bcm.edu	37	5	140798639	140798639	+	Missense_Mutation	SNP	G	G	C	rs17208397	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	42	128	0	0.330709	0	G|0.905;C|0.095	0.095	strong	.	PCDHGB7	117	.	NM_018927	exon1	c.G1213C	p.V405L	AAGCTAGTAACAG	.	PASS	Atlas-SNP
SEPT12	124404	hgsc.bcm.edu	37	16	4837545	4837545	+	Silent	SNP	A	A	G	rs9673735	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	55	124	0	0.514019	0	A|0.743;G|0.257	0.257	strong	SEPT12,colon,carcinoma,0,2	SEPT12	40	2	NM_144605	exon2	c.T102C	p.A34A	CAGCACAGCCTCA	.	PASS	Atlas-SNP
WNK2	65268	hgsc.bcm.edu	37	9	96015256	96015256	+	Silent	SNP	C	C	T	rs4744201	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	96	82	0	1	0	C|0.650;T|0.350	0.350	strong	.	WNK2	277	.	NM_006648	exon8	c.C1926T	p.D642D	TGCCGACGCAGCG	.	PASS	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112899573	112899573	+	Silent	SNP	T	T	C	rs6867579	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	78	185	0	0.430939	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
TRIM49	57093	hgsc.bcm.edu	37	11	89531540	89531540	+	Missense_Mutation	SNP	C	C	T	rs12417980	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	188	221	0	0.843049	0	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	.	PASS	Atlas-SNP
KIF17	57576	hgsc.bcm.edu	37	1	21031046	21031046	+	Silent	SNP	C	C	T	rs2296226	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	138	237	0	0.577406	0	C|0.878;T|0.122	0.122	strong	KIF17,colon,carcinoma,0,1	KIF17	130	1	NM_001122819	exon5	c.G1017A	p.P339P	GATGCGCGGCTTG	.	PASS	Atlas-SNP
TPGS1	91978	hgsc.bcm.edu	37	19	507731	507731	+	Silent	SNP	C	C	T	rs16990489	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	14	43	0	0.583333	0	C|0.974;T|0.026	0.026	strong	.	.	.	.	NM_033513	exon1	c.C225T	p.G75G	CATGGGCCTGCGC	.	PASS	Atlas-SNP
MSH4	4438	hgsc.bcm.edu	37	1	76344705	76344705	+	Silent	SNP	T	T	C	rs5745448	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	32	75	0	0.484848	0	T|0.728;C|0.272	0.272	strong	.	MSH4	147	.	NM_002440	exon12	c.T1569C	p.Y523Y	AAAATATAGTCTA	.	PASS	Atlas-SNP
MEFV	4210	hgsc.bcm.edu	37	16	3293922	3293922	+	Missense_Mutation	SNP	A	A	T	rs1231123	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	50	101	0	0.42735	0	A|0.656;T|0.344	0.344	strong	.	MEFV	170	.	NM_001198536	exon8	c.T1272A	p.D424E	AAAAAAATCCTGA	.	PASS	Atlas-SNP
ZNF485	220992	hgsc.bcm.edu	37	10	44104101	44104101	+	Missense_Mutation	SNP	C	C	T	rs45545532	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	331	160	334	0	0.483384	0	C|0.915;T|0.085	0.085	strong	.	ZNF485	102	.	NM_145312	exon3	c.C64T	p.R22W	TTTACCCGGATTG	.	PASS	Atlas-SNP
BEND7	222389	hgsc.bcm.edu	37	10	13481427	13481427	+	Silent	SNP	T	T	A	rs12415754	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	71	112	0	0.486301	0	T|0.703;A|0.297	0.297	strong	.	BEND7	85	.	NM_152751	exon9	c.A1152T	p.S384S	CTGAGGTGAGCTC	.	PASS	Atlas-SNP
SORL1	6653	hgsc.bcm.edu	37	11	121475922	121475922	+	Silent	SNP	T	T	A	rs3824968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	109	122	0	0.990909	0	T|0.706;A|0.294	0.294	strong	.	SORL1	218	.	NM_003105	exon34	c.T4752A	p.A1584A	CTCTGCTTCTTGT	.	PASS	Atlas-SNP
KLRC4	8302	hgsc.bcm.edu	37	12	10562089	10562089	+	Missense_Mutation	SNP	A	A	C	rs1841958	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	463	463	366	0	1	0	A|0.302;C|0.698	0.698	strong	.	KLRC4	23	.	NM_013431	exon1	c.T86G	p.I29S	ATGGAGATTTTAT	.	PASS	Atlas-SNP
TTLL4	9654	hgsc.bcm.edu	37	2	219602499	219602499	+	Missense_Mutation	SNP	G	G	C	rs3731877	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	145	145	0	0.993151	0	G|0.525;C|0.475	0.475	strong	TTLL4,brain,glioma,0,1	TTLL4	96	1	NM_014640	exon3	c.G100C	p.E34Q	CCACCTGAGAAAC	.	PASS	Atlas-SNP
MRGPRE	116534	hgsc.bcm.edu	37	11	3249829	3249829	+	Silent	SNP	G	G	A	rs11026040	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	36	63	0	0.48	0	A|0.172;G|0.828	0.172	strong	.	MRGPRE	35	.	NM_001039165	exon2	c.C201T	p.C67C	ATCCGCGCAGGCC	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33651129	33651129	+	Silent	SNP	C	C	T	rs942636	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	47	105	0	0.435185	0	C|0.835;T|0.165	0.165	strong	.	ITPR3	409	.	NM_002224	exon35	c.C4743T	p.P1581P	CACCCCCACCGCC	.	PASS	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	37	10	115389356	115389356	+	Silent	SNP	G	G	A	rs2286736	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	42	94	0	0.525	0	G|0.727;A|0.273	0.273	strong	.	NRAP	208	.	NM_001261463	exon19	c.C2031T	p.L677L	GCTCTGGAGCCCA	.	PASS	Atlas-SNP
ZNRF3	84133	hgsc.bcm.edu	37	22	29446745	29446745	+	Missense_Mutation	SNP	G	G	A	rs200918833	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	60	90	0	0.618557	0	.	.	weak	ZNRF3,colon,carcinoma,+1,1	ZNRF3	75	1	NM_001206998	exon8	c.G2576A	p.R859Q	GGACGCGAGGCCC	.	PASS	Atlas-SNP
FMNL2	114793	hgsc.bcm.edu	37	2	153435434	153435434	+	Silent	SNP	C	C	T	rs16831399	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	40	92	0	0.493827	0	C|0.842;N|0.000	.	strong	.	FMNL2	75	.	NM_052905	exon8	c.C738T	p.H246H	TCCACACGCTGTC	.	PASS	Atlas-SNP
TFEB	7942	hgsc.bcm.edu	37	6	41652514	41652514	+	Silent	SNP	C	C	T	rs2073158	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	100	144	0	0.558659	0	C|0.832;T|0.168	0.168	strong	TFEB,NS,carcinoma,-1,1	TFEB	37	1	NM_001167827	exon9	c.G1296A	p.A432A	CCCCGGCGCCAGG	.	PASS	Atlas-SNP
FAM26D	221301	hgsc.bcm.edu	37	6	116875493	116875493	+	Silent	SNP	T	T	C	rs9387420	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	31	18	38	0	0.580645	0	C|0.205;N|0.000	0.205	strong	.	FAM26D	29	.	NM_001256887	exon3	c.T108C	p.L36L	AGCTCTTCTGCAC	.	PASS	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	37	8	68993013	68993013	+	Silent	SNP	A	A	G	rs368406603	bycluster;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	202	215	0	1	0	.	.	alt	.	PREX2	614	.	NM_025170	exon17	c.A1818G	p.G606G	CTTTGGATTAGAA	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8191401	8191401	+	Silent	SNP	G	G	A	rs3813778	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	38	67	0	0.622951	0	G|0.684;A|0.316	0.316	strong	FBN3,NS,carcinoma,0,1	FBN3	300	1	NM_032447	exon19	c.C2505T	p.C835C	GGTGGCGCAGCAC	.	PASS	Atlas-SNP
LRIG1	26018	hgsc.bcm.edu	37	3	66430811	66430811	+	Missense_Mutation	SNP	T	T	G	rs2279290	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	70	130	0	0.460526	0	T|0.854;G|0.146	0.146	strong	.	LRIG1	138	.	NM_015541	exon19	c.A3158C	p.Q1053P	AAGTACTGGGCTT	.	PASS	Atlas-SNP
SEC14L2	23541	hgsc.bcm.edu	37	22	30793137	30793137	+	Missense_Mutation	SNP	G	G	A	rs757660	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	41	123	0	0.401961	0	G|0.644;A|0.356	0.356	strong	.	SEC14L2	24	.	NM_001204204	exon1	c.G32A	p.R11K	GCCCCAGGCAGAA	.	PASS	Atlas-SNP
ALS2CL	259173	hgsc.bcm.edu	37	3	46713457	46713457	+	Silent	SNP	C	C	G	rs7625303	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	54	122	0	0.477876	0	C|0.780;G|0.220	0.220	strong	.	ALS2CL	78	.	NM_001190707	exon24	c.G2601C	p.T867T	CGACACCGTGCCC	.	PASS	Atlas-SNP
IL37	27178	hgsc.bcm.edu	37	2	113671410	113671410	+	Missense_Mutation	SNP	A	A	G	rs3811047	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	309	308	397	3	0.996764	0.00755668	A|0.399;G|0.601	0.601	strong	IL37,NS,carcinoma,-1,1	IL37	56	1	NM_014439	exon2	c.A124G	p.T42A	CTCCCCACCATGA	.	PASS	Atlas-SNP
QSOX2	169714	hgsc.bcm.edu	37	9	139110654	139110654	+	Silent	SNP	C	C	T	rs12684650	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	17	37	0	0.515152	0	C|0.803;N|0.000	.	strong	.	QSOX2	63	.	NM_181701	exon8	c.G957A	p.K319K	CTTCGACCTAGGA	.	PASS	Atlas-SNP
TMEM132C	92293	hgsc.bcm.edu	37	12	129028586	129028586	+	Silent	SNP	C	C	T	rs73426420	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	118	113	0	0.967213	0	C|0.848;T|0.152	0.152	strong	.	TMEM132C	142	.	NM_001136103	exon3	c.C1059T	p.S353S	GGGCAGCGGCGGA	.	PASS	Atlas-SNP
PLA2R1	22925	hgsc.bcm.edu	37	2	160808075	160808075	+	Missense_Mutation	SNP	C	C	T	rs3828323	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	67	128	0	0.39645	0	C|0.679;T|0.321	0.321	strong	.	PLA2R1	153	.	NM_001195641	exon24	c.G3316A	p.G1106S	TTACACCGTGTCC	.	PASS	Atlas-SNP
CDH6	1004	hgsc.bcm.edu	37	5	31317952	31317952	+	Silent	SNP	T	T	C	rs2229575	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	32	76	0	0.4	0	T|0.595;C|0.405	0.405	strong	.	CDH6	175	.	NM_004932	exon11	c.T1803C	p.H601H	CTGCCATGCGGAG	.	PASS	Atlas-SNP
SGCG	6445	hgsc.bcm.edu	37	13	23898509	23898509	+	Silent	SNP	T	T	C	rs1800353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	37	91	0	0.430233	0	T|0.406;C|0.594	0.594	strong	.	SGCG	64	.	NM_000231	exon8	c.T705C	p.L235L	CCAGCTTGTGCTT	.	PASS	Atlas-SNP
GMEB2	26205	hgsc.bcm.edu	37	20	62221766	62221766	+	Silent	SNP	C	C	T	rs2297428	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	21	48	0	0.42	0	C|0.763;T|0.237	0.237	strong	.	GMEB2	44	.	NM_012384	exon10	c.G1269A	p.P423P	GGAGGCCGGGGAG	.	PASS	Atlas-SNP
VPS9D1	9605	hgsc.bcm.edu	37	16	89777761	89777761	+	Silent	SNP	C	C	T	rs12920315	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	65	145	0	0.507812	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
CXCR5	643	hgsc.bcm.edu	37	11	118764448	118764448	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	70	147	0	0.463576	0	.	.	none	.	CXCR5	34	.	NM_001716	exon2	c.C195T	p.G65G	CCTGGGCGTGATC	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20295779	20295779	+	Missense_Mutation	SNP	C	C	G	rs11621884	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	293	131	357	1	0.447099	0.00280112	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
TRIOBP	11078	hgsc.bcm.edu	37	22	38129332	38129332	+	Silent	SNP	G	G	A	rs7284476	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	228	182	0	1	0	G|0.639;A|0.361	0.361	strong	.	TRIOBP	262	.	NM_001039141	exon8	c.G3975A	p.Q1325Q	CTTCCAGGCCCAG	.	PASS	Atlas-SNP
ZNF19	7567	hgsc.bcm.edu	37	16	71509796	71509796	+	Missense_Mutation	SNP	C	C	G	rs8050871	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	55	96	0	0.55	0	C|0.357;G|0.643	0.643	strong	.	ZNF19	46	.	NM_006961	exon6	c.G654C	p.Q218H	CTCACACTGATAG	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81241098	81241098	+	Silent	SNP	C	C	T	rs11150369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	52	85	0	1	0	C|0.212;T|0.788	0.788	strong	.	PKD1L2	361	.	NM_001076780	exon5	c.G903A	p.P301P	CCTCGGCGGGTTG	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72822296	72822296	+	Silent	SNP	G	G	A	rs2228199	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	116	172	0	0.504348	0	G|0.949;A|0.051	0.051	strong	.	ZFHX3	404	.	NM_006885	exon10	c.C9879T	p.A3293A	CAACGCGGCCTGC	.	PASS	Atlas-SNP
SLC38A10	124565	hgsc.bcm.edu	37	17	79244802	79244802	+	Silent	SNP	T	T	C	rs2292184	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	65	112	0	0.560345	0	T|0.518;C|0.482	0.482	strong	SLC38A10_ENST00000374759,NS,carcinoma,0,2	SLC38A10	133	2	NM_001037984	exon10	c.A1047G	p.T349T	CGCTCCTGTGAGG	.	PASS	Atlas-SNP
MAU2	23383	hgsc.bcm.edu	37	19	19446936	19446936	+	Silent	SNP	G	G	A	rs769267	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	95	167	0	0.58642	0	G|0.435;A|0.565	0.565	strong	.	MAU2	38	.	NM_015329	exon3	c.G300A	p.P100P	GATCCCGCAGTTC	.	PASS	Atlas-SNP
AATK	9625	hgsc.bcm.edu	37	17	79095144	79095144	+	Silent	SNP	G	G	A	rs8073904	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	90	91	0	0.989011	0	G|0.190;A|0.810	0.810	strong	.	AATK	102	.	NM_001080395	exon11	c.C2592T	p.A864A	GGCCTCGGCCGTG	.	PASS	Atlas-SNP
FAM109B	150368	hgsc.bcm.edu	37	22	42473860	42473860	+	Missense_Mutation	SNP	C	C	G	rs1807493	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	40	63	0	0.493827	0	C|0.837;G|0.163	0.163	strong	.	FAM109B	22	.	NM_001002034	exon3	c.C563G	p.A188G	AAGAAGCGGGCAG	.	PASS	Atlas-SNP
WDR16	146845	hgsc.bcm.edu	37	17	9515777	9515777	+	Missense_Mutation	SNP	G	G	A	rs6503235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	54	69	0	1	0	G|0.383;A|0.617	0.617	strong	WDR16,NS,carcinoma,0,1	WDR16	67	1	NM_145054	exon8	c.G1006A	p.E336K	GCTGTCGAGGATA	.	PASS	Atlas-SNP
OTOF	9381	hgsc.bcm.edu	37	2	26739423	26739423	+	Silent	SNP	T	T	C	rs11687696	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	27	49	0	0.54	0	T|0.761;C|0.239	0.239	strong	.	OTOF	524	.	NM_194248	exon5	c.A372G	p.T124T	GCCCACTGTGCCG	.	PASS	Atlas-SNP
FAM120AOS	158293	hgsc.bcm.edu	37	9	96214928	96214928	+	Missense_Mutation	SNP	G	G	A	rs1055710	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	12	12	5	0	1	0	G|0.688;A|0.312	0.312	strong	.	FAM120AOS	13	.	NM_198841	exon1	c.C64T	p.L22F	GGGAGAGAGCCCC	.	PASS	Atlas-SNP
FAM218A	152756	hgsc.bcm.edu	37	4	165878609	165878609	+	Silent	SNP	T	T	A	rs3196673	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268	144	222	0	0.537313	0	T|0.736;A|0.264	0.264	strong	.	.	.	.	NM_153027	exon1	c.T435A	p.S145S	TGGGTCTGCAGTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	57	155	0	0.337278	0	G|0.673;T|0.321	0.321	strong	.	WISP3	33	.	NM_198239	exon2	c.G222T	p.Q74H	CCCTCAGCAGAAG	.	PASS	Atlas-SNP
MB21D1	115004	hgsc.bcm.edu	37	6	74155346	74155346	+	Missense_Mutation	SNP	G	G	T	rs610913	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	45	83	0	0.5625	0	G|0.477;T|0.523	0.523	strong	.	MB21D1	33	.	NM_138441	exon2	c.C782A	p.P261H	CTCAGAGGATTTT	.	PASS	Atlas-SNP
ZSCAN9	7746	hgsc.bcm.edu	37	6	28195521	28195521	+	Silent	SNP	A	A	G	rs12197427	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	125	205	0	0.586854	0	A|0.971;G|0.029	0.029	strong	ZNF193,NS,carcinoma,+2,1	.	.	1	NM_006299	exon3	c.A474G	p.L158L	GCCTCTAGCAGAG	.	PASS	Atlas-SNP
CLCN1	1180	hgsc.bcm.edu	37	7	143016928	143016928	+	Silent	SNP	C	C	T	rs6962852	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	60	120	0	0.495868	0	C|0.646;T|0.354	0.354	strong	.	CLCN1	141	.	NM_000083	exon2	c.C261T	p.T87T	TTCTACCGTGGAC	.	PASS	Atlas-SNP
SUSD2	56241	hgsc.bcm.edu	37	22	24581207	24581207	+	Silent	SNP	C	C	T	rs3752497	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	28	76	0	0.608696	0	C|0.922;T|0.078	0.078	strong	.	SUSD2	68	.	NM_019601	exon6	c.C928T	p.L310L	GAGGAGCTGCCGG	.	PASS	Atlas-SNP
ZNF253	56242	hgsc.bcm.edu	37	19	19989295	19989295	+	Silent	SNP	A	A	G	rs10406883	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	20	48	0	0.363636	0	A|0.951;G|0.049	0.049	strong	.	ZNF253	99	.	NM_021047	exon2	c.A9G	p.P3P	GGGACCATTGCAA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9074073	9074073	+	Missense_Mutation	SNP	G	G	A	rs72486387	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	140	214	1	0.571429	0.0046729	G|0.808;A|0.192	0.192	strong	.	MUC16	4315	.	NM_024690	exon3	c.C13373T	p.P4458L	AAGAAAGGTGTCA	.	PASS	Atlas-SNP
PLAC4	191585	hgsc.bcm.edu	37	21	42551432	42551432	+	Nonsense_Mutation	SNP	T	T	A	rs5019194	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	33	179	0	0.149321	0	.	.	weak	.	.	.	.	NM_182832	exon1	c.A124T	p.R42X	GGTGTCTGGGGTG	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42168400	42168400	+	Missense_Mutation	SNP	C	C	T	rs2290559	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	64	87	0	0.537815	0	C|0.835;T|0.165	0.165	strong	.	SPTBN5	171	.	NM_016642	exon21	c.G3929A	p.R1310H	TTTCTGCGCGCTC	.	PASS	Atlas-SNP
ZHX2	22882	hgsc.bcm.edu	37	8	123964953	123964953	+	Silent	SNP	C	C	T	rs3808600	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	63	88	0	0.588785	0	C|0.762;T|0.238	0.238	strong	.	ZHX2	106	.	NM_014943	exon3	c.C1203T	p.T401T	AGTCACCAACCAT	.	PASS	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70924812	70924812	+	Missense_Mutation	SNP	C	C	T	rs370238293		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	244	13	241	1	0.0532787	0.00414938	.	.	weak	ADAM21_ENST00000267499,NS,carcinoma,0,6	ADAM21	181	6	NM_003813	exon2	c.C596T	p.S199F	CAAAATCTGCTGG	.	scavenged	Atlas-SNP
PTPN7	5778	hgsc.bcm.edu	37	1	202124690	202124690	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	50	109	0	0.45045	0	.	.	none	PTPN7,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	PTPN7	31	1	NM_002832	exon5	c.G754A	p.G252R	AATCTCCGTCCTC	.	PASS	Atlas-SNP
STON1	11037	hgsc.bcm.edu	37	2	48822381	48822381	+	Silent	SNP	G	G	A	rs2140551	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	77	97	0	1	0	G|0.518;A|0.482	0.482	strong	.	STON1	100	.	NM_001198595	exon5	c.G2148A	p.K716K	AGAAAAGAAGTGG	.	PASS	Atlas-SNP
SYMPK	8189	hgsc.bcm.edu	37	19	46341824	46341824	+	Silent	SNP	C	C	T	rs17850110	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	52	102	0	0.468468	0	C|0.873;G|0.000;T|0.127	0.127	strong	.	SYMPK	104	.	NM_004819	exon10	c.G1137A	p.P379P	CCCCGACGGGCCT	.	PASS	Atlas-SNP
SLC52A3	113278	hgsc.bcm.edu	37	20	746098	746098	+	Silent	SNP	G	G	A	rs3746808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	54	120	0	0.382979	0	G|0.754;A|0.246	0.246	strong	.	.	.	.	NM_033409	exon2	c.C321T	p.A107A	CAAGAAGGCGATG	.	PASS	Atlas-SNP
OR6N1	128372	hgsc.bcm.edu	37	1	158735740	158735740	+	Missense_Mutation	SNP	A	A	G	rs857826	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	177	150	0	1	0	A|0.285;G|0.715	0.715	strong	OR6N1,NS,carcinoma,0,3	OR6N1	96	3	NM_001005185	exon1	c.T733C	p.F245L	CAGTGAAGTGGGA	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105406235	105406235	+	Missense_Mutation	SNP	A	A	C	rs78014542	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	19	46	0	0.527778	0	A|0.988;C|0.012	0.012	strong	.	AHNAK2	719	.	NM_138420	exon7	c.T15553G	p.S5185A	CCTGCGAGTACTT	.	PASS	Atlas-SNP
OR13C2	392376	hgsc.bcm.edu	37	9	107367704	107367704	+	Missense_Mutation	SNP	A	A	T	rs57169158	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	782	56	804	71	0.0716113	0.0883085	A|0.222;T|0.778	0.778	strong	OR13C2,NS,carcinoma,0,1	OR13C2	46	1	NM_001004481	exon1	c.T205A	p.L69M	TGTCCAAGAAGGA	.	scavenged	Atlas-SNP
USP16	10600	hgsc.bcm.edu	37	21	30408670	30408670	+	Missense_Mutation	SNP	A	A	T	rs2274802	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	69	112	0	0.526718	0	A|0.804;T|0.196	0.196	strong	.	USP16	65	.	NM_006447	exon5	c.A423T	p.Q141H	AAAACAAGCCAGC	.	PASS	Atlas-SNP
THAP4	51078	hgsc.bcm.edu	37	2	242573211	242573211	+	Missense_Mutation	SNP	T	T	C	rs7424328	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	40	82	0	0.465116	0	T|0.492;C|0.508	0.508	strong	.	THAP4	27	.	NM_015963	exon2	c.A361G	p.S121G	CTCTGCTGGTGGC	.	PASS	Atlas-SNP
NAPRT1	93100	hgsc.bcm.edu	37	8	144660046	144660046	+	Silent	SNP	G	G	A	rs896954	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	11	37	0	0.297297	0	G|0.851;A|0.149	0.149	strong	NAPRT1,extremity,malignant_melanoma,-2,1	NAPRT1	47	1	NM_145201	exon2	c.C294T	p.A98A	GTCGAGGGCCCGA	.	PASS	Atlas-SNP
SRA1	10011	hgsc.bcm.edu	37	5	139936980	139936980	+	Missense_Mutation	SNP	A	A	G	rs250427	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	15	124	0	0.217391	0	A|0.290;G|0.710	0.710	strong	.	SRA1	24	.	NM_001253764	exon1	c.T58C	p.C20R	GGCGACAACCTAG	.	PASS	Atlas-SNP
PGAM5	192111	hgsc.bcm.edu	37	12	133294333	133294333	+	Silent	SNP	C	C	T	rs61978651	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	32	43	0	0.680851	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
SIGLEC12	89858	hgsc.bcm.edu	37	19	52001485	52001485	+	Missense_Mutation	SNP	G	G	A	rs11668530	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	80	0	1	0	G|0.640;A|0.360	0.360	strong	.	SIGLEC12	243	.	NM_053003	exon5	c.C1192T	p.H398Y	CAAGGTGCAGGGA	.	PASS	Atlas-SNP
PIM3	415116	hgsc.bcm.edu	37	22	50354773	50354773	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	7	24	0	0.4375	0	.	.	none	.	PIM3	15	.	NM_001001852	exon2	c.C86T	p.A29V	CTGCAGCCAAGGC	.	PASS	Atlas-SNP
ZNF283	284349	hgsc.bcm.edu	37	19	44352639	44352639	+	Missense_Mutation	SNP	G	G	A	rs1061768	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	64	83	0	0.5	0	G|0.832;A|0.168	0.168	strong	.	ZNF283	83	.	NM_181845	exon7	c.G1886A	p.R629H	ATCAACGTAAGGA	.	PASS	Atlas-SNP
MYH3	4621	hgsc.bcm.edu	37	17	10544416	10544416	+	Silent	SNP	G	G	T	rs876657	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	243	264	0	1	0	G|0.466;T|0.534	0.534	strong	.	MYH3	227	.	NM_002470	exon19	c.C2151A	p.G717G	AAAATCGCCATAG	.	PASS	Atlas-SNP
SIM1	6492	hgsc.bcm.edu	37	6	100868721	100868721	+	Missense_Mutation	SNP	G	G	A	rs3734355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	85	200	0	0.524691	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
NEK11	79858	hgsc.bcm.edu	37	3	130947435	130947435	+	Missense_Mutation	SNP	A	A	T	rs3738000	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	27	53	0	0.586957	0	A|0.481;T|0.519	0.519	strong	.	NEK11	76	.	NM_024800	exon15	c.A1463T	p.E488V	ATTGTGAAGAGAG	.	PASS	Atlas-SNP
SYNJ2	8871	hgsc.bcm.edu	37	6	158502527	158502527	+	Silent	SNP	C	C	T	rs1744177	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	50	144	0	0.442478	0	C|0.911;T|0.089	0.089	strong	.	SYNJ2	111	.	NM_003898	exon20	c.C2850T	p.D950D	CCTGGACGTGGAC	.	PASS	Atlas-SNP
PHACTR2	9749	hgsc.bcm.edu	37	6	144081768	144081768	+	Silent	SNP	C	C	A	rs2073215	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	24	48	0	0.585366	0	C|0.800;A|0.200	0.200	strong	.	PHACTR2	99	.	NM_001100164	exon5	c.C685A	p.R229R	ACGACCCGAGAGG	.	PASS	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	37	15	33905410	33905410	+	Missense_Mutation	SNP	A	A	G	rs2229116	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	99	145	0	0.538043	0	A|0.790;G|0.210	0.210	strong	RYR3,colon,carcinoma,0,1	RYR3	760	1	NM_001243996	exon19	c.A2191G	p.I731V	GCTTCCATCAACC	.	PASS	Atlas-SNP
SPATA22	84690	hgsc.bcm.edu	37	17	3352309	3352309	+	Missense_Mutation	SNP	T	T	C	rs11556563	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	308	308	269	0	1	0	T|0.702;C|0.298	0.298	strong	.	SPATA22	49	.	NM_032598	exon6	c.A464G	p.Q155R	TGTTTTTGTTGTT	.	PASS	Atlas-SNP
LDLR	3949	hgsc.bcm.edu	37	19	11227602	11227602	+	Silent	SNP	C	C	T	rs688	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	95	161	0	0.472637	0	C|0.717;N|0.000	.	strong	.	LDLR	72	.	NM_001195798	exon12	c.C1773T	p.N591N	TGTCAACGGGGGC	.	PASS	Atlas-SNP
DSCAM	1826	hgsc.bcm.edu	37	21	41559182	41559182	+	Silent	SNP	G	G	A	rs2297267	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	70	154	0	0.479452	0	G|0.952;A|0.048	0.048	strong	.	DSCAM	347	.	NM_001271534	exon14	c.C2655T	p.P885P	GTCTGGGGGCTCT	.	PASS	Atlas-SNP
SLC4A2	6522	hgsc.bcm.edu	37	7	150761314	150761314	+	Missense_Mutation	SNP	G	G	A	rs2303929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	88	161	0	0.502857	0	G|0.779;A|0.221	0.221	strong	SLC4A2,NS,carcinoma,0,1	SLC4A2	98	1	NM_003040	exon3	c.G77A	p.G26E	GCCCTGGGACGCC	.	PASS	Atlas-SNP
DOC2A	8448	hgsc.bcm.edu	37	16	30021402	30021402	+	Missense_Mutation	SNP	C	C	T	rs1140239	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	43	92	0	0.494253	0	C|0.733;T|0.267	0.267	strong	.	DOC2A	40	.	NM_003586	exon2	c.G142A	p.G48S	CGCCGCCCCCGCC	.	PASS	Atlas-SNP
RP1	6101	hgsc.bcm.edu	37	8	55542540	55542540	+	Missense_Mutation	SNP	G	G	A	rs61739567	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	121	151	0	1	0	A|0.295;G|0.705	0.295	strong	.	RP1	429	.	NM_006269	exon4	c.G6098A	p.C2033Y	GGTTTTGTATGAA	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63988357	63988357	+	Missense_Mutation	SNP	C	C	G	rs2255243	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	88	75	0	1	0	C|0.305;G|0.695	0.695	strong	HERC1_ENST00000443617,NS,carcinoma,0,1	HERC1	624	1	NM_003922	exon27	c.G5087C	p.G1696A	CCCTTGCCTCCTG	.	PASS	Atlas-SNP
ZNF45	7596	hgsc.bcm.edu	37	19	44418680	44418680	+	Missense_Mutation	SNP	G	G	C	rs388685	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	83	161	0	0.494048	0	G|0.566;C|0.433	0.433	strong	.	ZNF45	51	.	NM_003425	exon10	c.C908G	p.P303R	TTATATGGTTTCT	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1252118	1252118	+	Silent	SNP	C	C	T	rs2407083	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	13	8	20	0	0.615385	0	C|0.919;T|0.081	0.081	strong	.	CACNA1H	317	.	NM_021098	exon9	c.C1668T	p.P556P	CGCGCCCCCCTCG	.	PASS	Atlas-SNP
TM4SF20	79853	hgsc.bcm.edu	37	2	228243905	228243905	+	Missense_Mutation	SNP	G	G	A	rs7574414	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	56	104	0	0.504505	0	G|0.889;A|0.111	0.111	strong	TM4SF20,NS,carcinoma,0,1	TM4SF20	24	1	NM_024795	exon1	c.C80T	p.A27V	GGTATCGCATTGA	.	PASS	Atlas-SNP
TMEM8A	58986	hgsc.bcm.edu	37	16	427820	427820	+	Silent	SNP	C	C	T	rs12922073	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	123	156	0	0.984	0	A|0.000;C|0.470;G|0.000;T|0.530	0.530	strong	.	TMEM8A	49	.	NM_021259	exon2	c.G150A	p.S50S	GGCCTGCGAGAAG	.	PASS	Atlas-SNP
COMMD5	28991	hgsc.bcm.edu	37	8	146076708	146076708	+	Missense_Mutation	SNP	C	C	T	rs1209879	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	112	206	0	0.449799	0	T|0.254;G|0.001	0.254	strong	.	COMMD5	18	.	NM_001081004	exon2	c.G16A	p.A6T	TTGCAGCCCCCAC	.	PASS	Atlas-SNP
RIOK2	55781	hgsc.bcm.edu	37	5	96498783	96498783	+	Silent	SNP	G	G	A	rs8654	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	25	58	0	0.5	0	G|0.438;A|0.562	0.562	strong	RIOK2,colon,carcinoma,-1,1	RIOK2	82	1	NM_018343	exon10	c.C1641T	p.A547A	AAAGCTGGCTGCT	.	PASS	Atlas-SNP
SPIB	6689	hgsc.bcm.edu	37	19	50926126	50926126	+	Missense_Mutation	SNP	C	C	T	rs61729811	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	100	206	0	0.502513	0	C|0.962;T|0.038	0.038	strong	.	SPIB	23	.	NM_001244000	exon4	c.C113T	p.P38L	CACCCCCTATGAA	.	PASS	Atlas-SNP
PHIP	55023	hgsc.bcm.edu	37	6	79675701	79675701	+	Missense_Mutation	SNP	A	A	G	rs9350797	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	52	147	0	0.468468	0	A|0.746;G|0.254	0.254	strong	.	PHIP	177	.	NM_017934	exon28	c.T3278C	p.L1093P	TACTCAAGTTGAA	.	PASS	Atlas-SNP
OR1I1	126370	hgsc.bcm.edu	37	19	15198631	15198631	+	Missense_Mutation	SNP	A	A	C	rs8105737	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	51	109	0	0.439655	0	A|0.453;C|0.547	0.547	strong	.	OR1I1	58	.	NM_001004713	exon1	c.A755C	p.Y252S	TGTCCTATGGGAC	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38766701	38766701	+	Silent	SNP	C	C	T	rs6791171	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	47	160	0	0.348148	0	C|0.861;T|0.139	0.139	strong	.	SCN10A	359	.	NM_006514	exon17	c.G3192A	p.T1064T	TTTCCACGTCTCA	.	PASS	Atlas-SNP
SIGIRR	59307	hgsc.bcm.edu	37	11	408174	408174	+	Missense_Mutation	SNP	G	G	T	rs117739035	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	42	79	0	0.56	0	G|0.978;T|0.022	0.022	strong	.	SIGIRR	22	.	NM_001135053	exon4	c.C239A	p.S80Y	ACACTGGACACAA	.	PASS	Atlas-SNP
CELF4	56853	hgsc.bcm.edu	37	18	34850846	34850846	+	Silent	SNP	G	G	A	rs1443638	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	22	72	0	0.37931	0	G|0.726;A|0.274	0.274	strong	.	CELF4	90	.	NM_020180	exon8	c.C984T	p.A328A	AGGCACGGCTGGT	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	37	2	220354542	220354542	+	Silent	SNP	G	G	A	rs55969678	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	277	132	224	0	0.476534	0	G|0.917;A|0.083	0.083	strong	.	SPEG	272	.	NM_005876	exon36	c.G8802A	p.P2934P	CAGCCCGGCCAAG	.	PASS	Atlas-SNP
LDHAL6B	92483	hgsc.bcm.edu	37	15	59500116	59500116	+	Missense_Mutation	SNP	T	T	C	rs3825937	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	53	149	0	0.350993	0	T|0.679;C|0.321	0.321	strong	.	LDHAL6B	30	.	NM_033195	exon1	c.T977C	p.I326T	CCATAATTAAGGG	.	PASS	Atlas-SNP
DOCK5	80005	hgsc.bcm.edu	37	8	25230168	25230168	+	Silent	SNP	C	C	T	rs2271108	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	47	148	0	0.456311	0	C|0.562;T|0.438	0.438	strong	DOCK5,NS,carcinoma,0,1	DOCK5	167	1	NM_024940	exon35	c.C3618T	p.D1206D	GCTGGACTATAGA	.	PASS	Atlas-SNP
PMFBP1	83449	hgsc.bcm.edu	37	16	72184629	72184629	+	Missense_Mutation	SNP	C	C	T	rs217180	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	99	98	0	0.99	0	C|0.923;T|0.077	0.077	strong	.	PMFBP1	101	.	NM_031293	exon5	c.G514A	p.A172T	GAGAGGCGATCTT	.	PASS	Atlas-SNP
MROH7	374977	hgsc.bcm.edu	37	1	55119144	55119144	+	Missense_Mutation	SNP	A	A	G	rs11206407	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	36	144	1	0.363636	0.00694444	A|0.655;G|0.344	0.344	strong	HEATR8_ENST00000421030,colon,carcinoma,0,2	.	.	2	NM_001039464	exon3	c.A545G	p.H182R	GGCACCATTCCAG	.	scavenged	Atlas-SNP
TPM1	7168	hgsc.bcm.edu	37	15	63363291	63363291	+	Missense_Mutation	SNP	A	A	G	rs144045691	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	66	110	0	0.515625	0	A|0.999;G|0.001	0.001	strong	.	TPM1	59	.	NM_001018007	exon9	c.A775G	p.K259E	ACAGAGAAAGTGG	.	PASS	Atlas-SNP
C16orf88	400506	hgsc.bcm.edu	37	16	19726275	19726275	+	Missense_Mutation	SNP	C	C	T	rs11640454	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	30	76	0	0.394737	0	C|0.879;T|0.121	0.121	strong	C16orf88,NS,carcinoma,-1,1	C16orf88	41	1	NM_001012991	exon2	c.G83A	p.R28Q	GAGTATCGAGTCT	.	PASS	Atlas-SNP
OR2C3	81472	hgsc.bcm.edu	37	1	247694958	247694958	+	Silent	SNP	G	G	A	rs6702695	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	76	132	0	0.429379	0	G|0.830;A|0.170	0.170	strong	.	OR2C3	92	.	NM_198074	exon2	c.C856T	p.L286L	GGTTCAGCGCAGG	.	PASS	Atlas-SNP
USP20	10868	hgsc.bcm.edu	37	9	132637712	132637712	+	Silent	SNP	G	G	A	rs735115	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	123	118	0	0.991935	0	G|0.730;A|0.270	0.270	strong	.	USP20	186	.	NM_001008563	exon20	c.G2172A	p.A724A	CTTCGCGGAGCCA	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40389657	40389657	+	Missense_Mutation	SNP	T	T	G	rs3746010	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	381	76	865	1	0.199475	0.00115607	T|0.250;G|0.750	0.750	weak	FCGBP,rectum,carcinoma,0,1	FCGBP	416	1	NM_003890	exon18	c.A8525C	p.N2842T	CCTTTGTTGACGC	.	scavenged	Atlas-SNP
TTC7A	57217	hgsc.bcm.edu	37	2	47220622	47220622	+	Silent	SNP	G	G	A	rs17480869	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	124	212	0	0.5	0	G|0.848;A|0.152	0.152	strong	.	TTC7A	80	.	NM_020458	exon6	c.G798A	p.E266E	CCGGGAGGTGCTG	.	PASS	Atlas-SNP
STXBP3	6814	hgsc.bcm.edu	37	1	109338861	109338861	+	Silent	SNP	G	G	C	rs1127635	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	236	304	0	0.995781	0	G|0.624;C|0.375	0.375	strong	.	STXBP3	44	.	NM_007269	exon14	c.G1116C	p.L372L	GGACCTGGCACTT	.	PASS	Atlas-SNP
CERS4	79603	hgsc.bcm.edu	37	19	8321937	8321937	+	Silent	SNP	C	C	T	rs1127912	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	81	134	0	0.487952	0	C|0.761;T|0.239	0.239	strong	LASS4,NS,carcinoma,0,1	.	.	1	NM_024552	exon9	c.C717T	p.H239H	GTTACACGATTCC	.	PASS	Atlas-SNP
TMPRSS11A	339967	hgsc.bcm.edu	37	4	68812283	68812283	+	Silent	SNP	C	C	T	rs11930532	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	100	102	0	1	0	C|0.342;T|0.658	0.658	strong	.	TMPRSS11A	74	.	NM_001114387	exon2	c.G18A	p.V6V	AAATCCCACTGTC	.	PASS	Atlas-SNP
RPN1	6184	hgsc.bcm.edu	37	3	128356852	128356852	+	Silent	SNP	C	C	T	rs1697	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	277	137	233	0	0.494585	0	C|0.375;T|0.625	0.625	strong	.	RPN1	39	.	NM_002950	exon3	c.G423A	p.P141P	TGGATACGGATGA	.	PASS	Atlas-SNP
TNIK	23043	hgsc.bcm.edu	37	3	171087469	171087469	+	Silent	SNP	G	G	A	rs3796295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	82	72	0	1	0	G|0.509;A|0.491	0.491	strong	.	TNIK	313	.	NM_001161562	exon2	c.C63T	p.P21P	CCCTGCGGGGTCC	.	PASS	Atlas-SNP
C18orf21	83608	hgsc.bcm.edu	37	18	33557466	33557466	+	Missense_Mutation	SNP	A	A	G	rs2276314	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	48	55	0	0.592593	0	A|0.742;G|0.258	0.258	strong	.	C18orf21	15	.	NM_031446	exon4	c.A394G	p.T132A	ACTCCTACAAGTA	.	PASS	Atlas-SNP
GXYLT1	283464	hgsc.bcm.edu	37	12	42503467	42503467	+	Silent	SNP	T	T	C	rs7312933	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	38	71	0	0.447059	0	T|0.670;C|0.330	0.330	strong	.	GXYLT1	47	.	NM_173601	exon4	c.A513G	p.T171T	ATTAAATGTTTGT	.	PASS	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	37	17	17697099	17697099	+	Silent	SNP	G	G	A	rs11078398	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	37	86	0	0.474359	0	G|0.495;A|0.505	0.505	strong	.	RAI1	121	.	NM_030665	exon3	c.G837A	p.Q279Q	CCAGCAGCAGCAG	.	PASS	Atlas-SNP
GRIPAP1	56850	hgsc.bcm.edu	37	X	48847497	48847497	+	Silent	SNP	T	T	C	rs11545861	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	91	192	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
PTBP1	5725	hgsc.bcm.edu	37	19	808586	808586	+	Silent	SNP	C	C	G	rs13169	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	24	78	0	0.292683	0	C|0.867;G|0.133	0.133	strong	PTBP1,NS,lymphoid_neoplasm,0,1	PTBP1	43	1	NM_002819	exon13	c.C1287G	p.P429P	GAAGCCCATCCGC	.	scavenged	Atlas-SNP
DAGLA	747	hgsc.bcm.edu	37	11	61505168	61505168	+	Silent	SNP	G	G	A	rs198444	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	44	149	0	0.333333	0	G|0.536;A|0.464	0.464	strong	DAGLA,NS,carcinoma,+1,1	DAGLA	109	1	NM_006133	exon15	c.G1524A	p.A508A	GGATGCGATGGAG	.	PASS	Atlas-SNP
NMI	9111	hgsc.bcm.edu	37	2	152132130	152132130	+	Silent	SNP	A	A	G	rs289834	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	87	155	0	0.54375	0	A|0.833;G|0.167	0.167	strong	.	NMI	21	.	NM_004688	exon6	c.T502C	p.L168L	CACGCAATGTGTC	.	PASS	Atlas-SNP
IL12RB1	3594	hgsc.bcm.edu	37	19	18191664	18191664	+	Silent	SNP	C	C	G	rs11086087	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	31	75	0	0.418919	0	G|0.108;C|0.892	0.108	strong	.	IL12RB1	92	.	NM_153701	exon4	c.G387C	p.V129V	CAGGGTCACCTCA	.	PASS	Atlas-SNP
FBXW10	10517	hgsc.bcm.edu	37	17	18682399	18682399	+	Missense_Mutation	SNP	A	A	G	rs147994056	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	372	15	651	5	0.0403226	0.00768049	A|0.813;G|0.187	0.187	strong	FBXW10,extremity,malignant_melanoma,0,1	FBXW10	82	1	NM_001267585	exon14	c.A2947G	p.T983A	GTGAACACTGAGT	.	scavenged	Atlas-SNP
WDR34	89891	hgsc.bcm.edu	37	9	131398636	131398636	+	Silent	SNP	C	C	T	rs10760570	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	104	118	0	1	0	C|0.367;T|0.633	0.633	strong	WDR34,NS,carcinoma,0,2	WDR34	29	2	NM_052844	exon4	c.G627A	p.Q209Q	CGACGGCTGCTGG	.	PASS	Atlas-SNP
GTDC2	84892	hgsc.bcm.edu	37	3	43121559	43121559	+	Silent	SNP	C	C	T	rs604033	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	134	97	0	1	0	C|0.197;T|0.803	0.803	strong	.	.	.	.	NM_032806	exon2	c.G1365A	p.P455P	GAGGGACGGGATG	.	PASS	Atlas-SNP
BEST1	7439	hgsc.bcm.edu	37	11	61730553	61730553	+	Missense_Mutation	SNP	T	T	C	rs17185413	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	71	129	0	0.47651	0	T|0.906;C|0.094	0.094	strong	BEST1_ENST00000449131,colon,carcinoma,-1,2	BEST1	85	2	NM_001139443	exon9	c.T1747C	p.S583P	AAGTGTTCGGGAC	.	PASS	Atlas-SNP
IP6K2	51447	hgsc.bcm.edu	37	3	48725707	48725707	+	Silent	SNP	C	C	T	rs1048940	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	97	187	0	0.530055	0	T|0.062;G|0.000;C|0.937	0.062	strong	.	IP6K2	63	.	NM_016291	exon6	c.G1280A	p.X427X	CAAGCTCACTCCC	.	PASS	Atlas-SNP
FAM160B2	64760	hgsc.bcm.edu	37	8	21960096	21960096	+	Missense_Mutation	SNP	C	C	T	rs117802113	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	45	89	0	0.555556	0	C|0.945;T|0.055	0.055	strong	.	FAM160B2	35	.	NM_022749	exon16	c.C2050T	p.L684F	AAGCTGCTCCTGG	.	PASS	Atlas-SNP
IL16	3603	hgsc.bcm.edu	37	15	81578139	81578139	+	Missense_Mutation	SNP	C	C	T	rs4072111	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	87	189	0	0.587838	0	C|0.870;T|0.130	0.130	strong	IL16,NS,carcinoma,0,1	IL16	254	1	NM_001172128	exon10	c.C1300T	p.P434S	CCAGTCCCCATCA	.	PASS	Atlas-SNP
FGD4	121512	hgsc.bcm.edu	37	12	32777362	32777362	+	Silent	SNP	G	G	A	rs11052110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	65	88	0	0.580357	0	G|0.744;A|0.256	0.256	strong	.	FGD4	86	.	NM_139241	exon12	c.G1518A	p.A506A	TTCTGCGCAAGAC	.	PASS	Atlas-SNP
MGAT5B	146664	hgsc.bcm.edu	37	17	74936576	74936576	+	Silent	SNP	G	G	A	rs8081793	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	56	128	0	0.5	0	G|0.734;A|0.266	0.266	strong	.	MGAT5B	98	.	NM_198955	exon12	c.G1704A	p.P568P	CAGCCCGCCCCAC	.	PASS	Atlas-SNP
HSP90AB1	3326	hgsc.bcm.edu	37	6	44221262	44221262	+	Missense_Mutation	SNP	A	A	G	rs201760495	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	14	125	0	0.0838323	0	A|0.993;G|0.007	0.007	strong	.	HSP90AB1	83	.	NM_007355	exon12	c.A2102G	p.N701S	AACCCAATGCTGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195510192	195510192	+	Silent	SNP	A	A	C	rs367755087	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	195	26	135	1	0.133333	0.00740741	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,-2,2	MUC4	1505	2	NM_018406	exon2	c.T8259G	p.L2753L	GACAGGAAGAGGG	.	scavenged	Atlas-SNP
INO80D	54891	hgsc.bcm.edu	37	2	206872126	206872126	+	Silent	SNP	C	C	T	rs116331438	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	309	145	266	0	0.469256	0	C|0.999;T|0.001	0.001	strong	INO80D_ENST00000403263,NS,carcinoma,0,2	INO80D	134	2	NM_017759	exon10	c.G1800A	p.P600P	GTCATCCGGCAAC	.	PASS	Atlas-SNP
EXPH5	23086	hgsc.bcm.edu	37	11	108409784	108409784	+	Missense_Mutation	SNP	T	T	A	rs2640785	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	60	139	0	0.472441	0	T|0.797;A|0.203	0.203	strong	.	EXPH5	193	.	NM_015065	exon3	c.A410T	p.E137V	GAAGTCTCCTTTC	.	PASS	Atlas-SNP
TRAPPC12	51112	hgsc.bcm.edu	37	2	3469463	3469463	+	Silent	SNP	G	G	C	rs4971514	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	32	90	0	0.405063	0	G|0.566;C|0.434	0.434	strong	.	.	.	.	NM_016030	exon9	c.G1773C	p.L591L	TTCCCTGCAGGTA	.	PASS	Atlas-SNP
OR51B2	79345	hgsc.bcm.edu	37	11	5344592	5344592	+	Missense_Mutation	SNP	A	A	C	rs11036814	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	59	108	0	0.536364	0	A|0.880;C|0.120	0.120	strong	OR51B2,NS,carcinoma,0,1	OR51B2	69	1	NM_033180	exon1	c.T936G	p.S312R	AGTTTAACTACTA	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	6943264	6943264	+	Silent	SNP	G	G	A	rs2016639	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	176	209	1	0.99435	0.00478469	G|0.755;A|0.245	0.245	strong	LAMA1,NS,carcinoma,0,1	LAMA1	458	1	NM_005559	exon62	c.C8982T	p.D2994D	GTTCCCGTCAACA	.	PASS	Atlas-SNP
SPATA31E1	286234	hgsc.bcm.edu	37	9	90503007	90503007	+	Missense_Mutation	SNP	A	A	G	rs11789780	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	56	70	0	0.982456	0	A|0.555;G|0.445	0.445	strong	C9orf79,NS,carcinoma,0,3	.	.	3	NM_178828	exon4	c.A3605G	p.D1202G	GTGCGGACAAGGG	.	PASS	Atlas-SNP
ZNF280B	140883	hgsc.bcm.edu	37	22	22843118	22843118	+	Silent	SNP	C	C	T	rs2236730	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	133	126	0	0.977941	0	C|0.206;T|0.794	0.794	strong	.	ZNF280B	67	.	NM_080764	exon4	c.G606A	p.S202S	AGGGAACGAAGCT	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017316	1017316	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1323	44	1307	59	0.0332577	0.0451415	.	.	none	MUC6_ENST00000421673,right_upper_lobe,carcinoma,+1,2	MUC6	408	2	NM_005961	exon31	c.C5485A	p.P1829T	GTGATGGGGTTGG	.	scavenged	Atlas-SNP
SPATA31E1	286234	hgsc.bcm.edu	37	9	90503451	90503451	+	Missense_Mutation	SNP	G	G	A	rs11142017	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	127	120	0	0.992188	0	G|0.532;A|0.468	0.468	strong	.	.	.	.	NM_178828	exon4	c.G4049A	p.R1350H	ACTTCCGCGCCCA	.	PASS	Atlas-SNP
SPRR1B	6699	hgsc.bcm.edu	37	1	153004983	153004983	+	Silent	SNP	C	C	T	rs12195	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	263	152	226	1	0.577947	0.00442478	C|0.493;T|0.507	0.507	strong	.	SPRR1B	18	.	NM_003125	exon2	c.C162T	p.P54P	AGTGCCCGAGCCC	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56196451	56196451	+	Silent	SNP	C	C	T	rs7236563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	35	115	0	0.448718	0	C|0.554;T|0.446	0.446	strong	ALPK2_ENST00000361673,colon,carcinoma,0,2	ALPK2	487	2	NM_052947	exon6	c.G5373A	p.K1791K	TTGGATCTTTTTC	.	PASS	Atlas-SNP
WTAP	9589	hgsc.bcm.edu	37	6	160169258	160169258	+	Silent	SNP	G	G	T	rs7766006	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	339	144	327	0	0.424779	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
MUC4	4585	hgsc.bcm.edu	37	3	195507385	195507385	+	Missense_Mutation	SNP	G	G	A	rs199842409	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	75	19	1	0.630252	0.0526316	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C11066T	p.A3689V	GTGGATGCTGAGG	.	scavenged	Atlas-SNP
GAB4	128954	hgsc.bcm.edu	37	22	17469049	17469049	+	Nonsense_Mutation	SNP	C	C	A	rs28502153	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	88	86	0	1	0	C|0.664;A|0.336	0.336	strong	.	GAB4	95	.	NM_001037814	exon3	c.G487T	p.G163X	TGTTTCCCAGGAA	.	PASS	Atlas-SNP
SVOPL	136306	hgsc.bcm.edu	37	7	138312122	138312122	+	Missense_Mutation	SNP	A	A	C	rs2305816	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	31	84	0	0.476923	0	A|0.433;C|0.567	0.567	strong	.	SVOPL	111	.	NM_001139456	exon11	c.T1154G	p.F385C	AGAAGGAAGAATA	.	PASS	Atlas-SNP
PTPRT	11122	hgsc.bcm.edu	37	20	40743945	40743945	+	Missense_Mutation	SNP	A	A	G	rs41310016	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	68	109	0	0.507463	0	A|0.997;G|0.003	0.003	strong	.	PTPRT	372	.	NM_133170	exon23	c.T3050C	p.V1017A	TATCGCACACATT	.	PASS	Atlas-SNP
OTX1	5013	hgsc.bcm.edu	37	2	63283178	63283178	+	Silent	SNP	C	C	G	rs17850223	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	121	270	0	0.438406	0	C|0.884;G|0.116	0.116	strong	OTX1,NS,carcinoma,0,1	OTX1	49	1	NM_014562	exon5	c.C792G	p.L264L	CCAGCTCAGCCCC	.	PASS	Atlas-SNP
APOA5	116519	hgsc.bcm.edu	37	11	116662407	116662407	+	Missense_Mutation	SNP	G	G	C	rs3135506	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	87	143	0	0.530488	0	G|0.891;C|0.109	0.109	strong	APOA5,colon,carcinoma,0,1	APOA5	34	1	NM_001166598	exon3	c.C56G	p.S19W	GTGGCCGAAAACG	.	PASS	Atlas-SNP
ANKRD12	23253	hgsc.bcm.edu	37	18	9221883	9221883	+	Missense_Mutation	SNP	C	C	G	rs2298548	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	62	119	0	0.596154	0	C|0.936;G|0.064	0.064	strong	.	ANKRD12	167	.	NM_015208	exon8	c.C829G	p.P277A	GGAAATCCATTTC	.	PASS	Atlas-SNP
DOK1	1796	hgsc.bcm.edu	37	2	74783100	74783100	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	22	127	0	0.173228	0	.	.	none	.	DOK1	39	.	NM_001381	exon4	c.G534A	p.V178V	GAGGGTGGAGGCT	.	PASS	Atlas-SNP
MAP4	4134	hgsc.bcm.edu	37	3	47957996	47957996	+	Missense_Mutation	SNP	C	C	G	rs2230169	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	82	189	0	0.438503	0	C|0.951;G|0.049	0.049	strong	.	MAP4	176	.	NM_001134364	exon7	c.G1321C	p.E441Q	CTGTTTCTGAGGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	154	111	0	0.987179	0	G|0.901;C|0.099	0.099	strong	.	PRODH2	68	.	NM_021232	exon2	c.C272G	p.P91R	CTGGAGGGGGGAC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	67	94	0	1	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
RIPK4	54101	hgsc.bcm.edu	37	21	43162150	43162150	+	Silent	SNP	G	G	A	rs3746894	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	93	73	0	1	0	G|0.579;A|0.421	0.421	strong	.	RIPK4	151	.	NM_020639	exon8	c.C1203T	p.G401G	TGTGGTGCCCAGA	.	PASS	Atlas-SNP
UGGT1	56886	hgsc.bcm.edu	37	2	128870808	128870808	+	Silent	SNP	T	T	C	rs4662775	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	297	297	287	0	1	0	T|0.137;C|0.863	0.863	strong	.	UGGT1	126	.	NM_020120	exon6	c.T672C	p.N224N	AATCAATTATGTA	.	PASS	Atlas-SNP
ACAN	176	hgsc.bcm.edu	37	15	89415247	89415247	+	Missense_Mutation	SNP	C	C	G	rs3817428	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	119	139	0	0.991667	0	C|0.854;G|0.146	0.146	strong	ACAN,NS,carcinoma,0,1	ACAN	220	1	NM_013227	exon15	c.C7119G	p.D2373E	CCAAGACTACCAG	.	PASS	Atlas-SNP
FAAH2	158584	hgsc.bcm.edu	37	X	57475132	57475132	+	Silent	SNP	T	T	C	rs1367830	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	110	209	0	0.982143	0	T|0.496;0|0.015	.	strong	.	FAAH2	66	.	NM_174912	exon10	c.T1404C	p.P468P	ACGGCCTTTCAAC	.	PASS	Atlas-SNP
ZNF701	55762	hgsc.bcm.edu	37	19	53086598	53086598	+	Missense_Mutation	SNP	G	G	A	rs3745102	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	125	217	1	0.523013	0.00460829	G|0.686;A|0.314	0.314	strong	.	ZNF701	44	.	NM_001172655	exon5	c.G1484A	p.R495H	GTCATCGTAGACT	.	PASS	Atlas-SNP
RBBP8	5932	hgsc.bcm.edu	37	18	20577669	20577669	+	Silent	SNP	G	G	A	rs17852769	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	76	251	0	0.333333	0	G|0.821;A|0.179	0.179	strong	.	RBBP8	138	.	NM_203292	exon14	c.G2115A	p.K705K	GAAGAAGCAAGAG	.	PASS	Atlas-SNP
RBPJL	11317	hgsc.bcm.edu	37	20	43944958	43944958	+	Silent	SNP	G	G	T	rs2741500	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	154	105	0	1	0	G|0.853;T|0.147	0.147	strong	.	RBPJL	67	.	NM_014276	exon10	c.G1152T	p.P384P	CACTCCGGTGCCT	.	PASS	Atlas-SNP
CRKL	1399	hgsc.bcm.edu	37	22	21272249	21272249	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	22	44	0	0.52381	0	.	.	none	.	CRKL	28	.	NM_005207	exon1	c.G27A	p.S9S	CTCCTCGGACCGC	.	PASS	Atlas-SNP
MED9	55090	hgsc.bcm.edu	37	17	17394611	17394611	+	Silent	SNP	G	G	A	rs1242489	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	23	47	0	0.359375	0	G|0.779;A|0.221	0.221	strong	.	MED9	11	.	NM_018019	exon2	c.G243A	p.P81P	CAGCCCGGAGGTC	.	PASS	Atlas-SNP
SIX6	4990	hgsc.bcm.edu	37	14	60976537	60976537	+	Missense_Mutation	SNP	C	C	A	rs33912345	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	48	64	0	0.55814	0	C|0.576;A|0.424	0.424	strong	.	SIX6	27	.	NM_007374	exon1	c.C421A	p.H141N	ACGCGGCACCTGC	.	PASS	Atlas-SNP
PARP4	143	hgsc.bcm.edu	37	13	25068808	25068808	+	Missense_Mutation	SNP	A	A	T	rs9318600	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	76	182	0	0.460606	0	A|0.889;T|0.111	0.111	strong	.	PARP4	142	.	NM_006437	exon7	c.T644A	p.F215Y	TTTTCAAAGTATT	.	PASS	Atlas-SNP
LYPD5	284348	hgsc.bcm.edu	37	19	44306482	44306482	+	Silent	SNP	C	C	T	rs11879355	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	47	76	0	0.602564	0	C|0.728;T|0.272	0.272	strong	LYPD5_ENST00000377950,colon,carcinoma,-1,1	LYPD5	22	1	NM_001031749	exon1	c.G51A	p.A17A	GCAGAGCGCAGCC	.	PASS	Atlas-SNP
MDN1	23195	hgsc.bcm.edu	37	6	90499502	90499502	+	Silent	SNP	G	G	A	rs1036853	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	34	91	0	0.350515	0	G|0.905;A|0.095	0.095	strong	.	MDN1	478	.	NM_014611	exon7	c.C1227T	p.D409D	TACCACGTCTAAG	.	PASS	Atlas-SNP
GBP7	388646	hgsc.bcm.edu	37	1	89599037	89599037	+	Silent	SNP	A	A	G	rs72728707	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	550	89	497	0	0.161818	0	A|0.989;G|0.011	0.011	strong	.	GBP7	57	.	NM_207398	exon10	c.T1566C	p.S522S	CTGGAAACTTCTC	.	PASS	Atlas-SNP
OTUD3	23252	hgsc.bcm.edu	37	1	20233086	20233086	+	Missense_Mutation	SNP	G	G	A	rs10916668	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	45	142	0	0.384615	0	G|0.948;A|0.052	0.052	strong	OTUD3,NS,carcinoma,-2,1	OTUD3	25	1	NM_015207	exon7	c.G997A	p.A333T	AACAAAGCAAATA	.	PASS	Atlas-SNP
NT5DC3	51559	hgsc.bcm.edu	37	12	104186946	104186946	+	Silent	SNP	G	G	T	rs1866295	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	74	167	0	0.521127	0	G|0.708;T|0.292	0.292	strong	.	NT5DC3	113	.	NM_001031701	exon9	c.C1015A	p.R339R	ACCTCCGCTTATC	.	PASS	Atlas-SNP
SRRM2	23524	hgsc.bcm.edu	37	16	2812939	2812939	+	Missense_Mutation	SNP	C	C	A	rs2240140	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	68	55	0	0.985507	0	C|0.569;A|0.431	0.431	strong	.	SRRM2	263	.	NM_016333	exon11	c.C2410A	p.P804T	TCCCAACCTAAAG	.	PASS	Atlas-SNP
PCDHB13	56123	hgsc.bcm.edu	37	5	140594442	140594442	+	Silent	SNP	A	A	G	rs3822332	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	362	83	260	0	0.229282	0	.	.	weak	.	PCDHB13	142	.	NM_018933	exon1	c.A747G	p.R249R	CTATAGAGTGCAG	.	PASS	Atlas-SNP
MRGPRX3	117195	hgsc.bcm.edu	37	11	18159668	18159668	+	Missense_Mutation	SNP	T	T	C	rs79562368	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	126	104	0	1	0	T|0.948;C|0.052	0.052	strong	.	MRGPRX3	59	.	NM_054031	exon3	c.T919C	p.W307R	GGAGGGTGGCTTC	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31600304	31600304	+	Missense_Mutation	SNP	G	G	C	rs2736158	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	42	64	0	0.512195	0	G|0.935;C|0.065	0.065	strong	.	PRRC2A	152	.	NM_004638	exon16	c.G3854C	p.G1285A	CTCCTGGACCTGA	.	PASS	Atlas-SNP
CYP2B6	1555	hgsc.bcm.edu	37	19	41512841	41512841	+	Missense_Mutation	SNP	G	G	T	rs56308434		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	87	224	0	0.386667	0	.	.	weak	.	CYP2B6	79	.	NM_000767	exon4	c.G516T	p.Q172H	CTTCCAGTCCATT	.	PASS	Atlas-SNP
CXXC1	30827	hgsc.bcm.edu	37	18	47811374	47811374	+	Silent	SNP	G	G	A	rs17660776	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	143	153	0	0.979452	0	G|0.886;A|0.114	0.114	strong	.	CXXC1	50	.	NM_001101654	exon7	c.C910T	p.L304L	TCACCAGGCCATG	.	PASS	Atlas-SNP
LARP6	55323	hgsc.bcm.edu	37	15	71125093	71125093	+	Silent	SNP	G	G	A	rs3825970	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	170	199	0	0.977012	0	G|0.490;A|0.509	0.509	strong	LARP6,colon,carcinoma,0,1	LARP6	43	1	NM_018357	exon3	c.C774T	p.C258C	GATGGCGCACTCC	.	PASS	Atlas-SNP
GPR146	115330	hgsc.bcm.edu	37	7	1097430	1097430	+	Silent	SNP	G	G	A	rs61742514	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	36	78	0	0.537313	0	G|0.978;A|0.022	0.022	strong	.	GPR146	20	.	NM_138445	exon1	c.G279A	p.A93A	GTGGGCGCTGTGG	.	PASS	Atlas-SNP
GLT8D1	55830	hgsc.bcm.edu	37	3	52729264	52729264	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	2	148	0	0.0143885	0	.	.	none	GLT8D1,NS,carcinoma,-2,1	GLT8D1	28	1	NM_152932	exon9	c.T867C	p.L289L	TACGATAAGCAGA	.	scavenged	Atlas-SNP
KCNH6	81033	hgsc.bcm.edu	37	17	61611502	61611502	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	3	201	0	0.0160428	0	.	.	none	KCNH6,bladder,carcinoma,-2,1	KCNH6	122	1	NM_030779	exon5	c.T931C	p.F311L	ATCATGTTCGTCG	.	scavenged	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	37	1	186275983	186275983	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	5	121	0	0.0292398	0	.	.	none	PRG4,NS,malignant_melanoma,0,1	PRG4	259	1	NM_005807	exon7	c.C1132A	p.P378T	ACCACCCCCAAGG	.	scavenged	Atlas-SNP
MKRN1	23608	hgsc.bcm.edu	37	7	140158851	140158851	+	Missense_Mutation	SNP	C	C	G	rs2272095	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	68	167	0	0.427673	0	C|0.819;G|0.181	0.181	strong	.	MKRN1	35	.	NM_013446	exon4	c.G727C	p.V243L	GCAGGACCTGCAG	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144940331	144940331	+	Missense_Mutation	SNP	C	C	T	rs200585601	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	17	230	0	0.112583	0	C|0.997;T|0.003	0.003	weak	EPPK1,NS,carcinoma,0,6	EPPK1	199	6	NM_031308	exon1	c.G7091A	p.R2364Q	CCGCGCCGGTAGG	.	PASS	Atlas-SNP
RNF25	64320	hgsc.bcm.edu	37	2	219533378	219533378	+	Silent	SNP	T	T	C	rs16859170	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	29	89	0	0.358025	0	T|0.857;C|0.143	0.143	strong	.	RNF25	40	.	NM_022453	exon2	c.A66G	p.V22V	CTCCAATACTTCA	.	PASS	Atlas-SNP
DOK2	9046	hgsc.bcm.edu	37	8	21769432	21769432	+	Missense_Mutation	SNP	A	A	G	rs56094005	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	47	87	0	0.573171	0	A|0.975;G|0.025	0.025	strong	.	DOK2	51	.	NM_003974	exon3	c.T413C	p.L138S	CTGTACAATTCAT	.	PASS	Atlas-SNP
CDON	50937	hgsc.bcm.edu	37	11	125831701	125831701	+	Silent	SNP	G	G	A	rs2276061	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	61	133	0	0.42069	0	G|0.751;A|0.249	0.249	strong	.	CDON	137	.	NM_016952	exon19	c.C3549T	p.V1183V	AGTAGGGACTGGT	.	PASS	Atlas-SNP
UTP15	84135	hgsc.bcm.edu	37	5	72874907	72874907	+	Silent	SNP	A	A	C	rs343122	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	54	116	0	0.425197	0	A|0.839;C|0.161	0.161	strong	.	UTP15	30	.	NM_032175	exon11	c.A1212C	p.G404G	AAGAGGAGTCCTT	.	PASS	Atlas-SNP
ESPL1	9700	hgsc.bcm.edu	37	12	53682457	53682457	+	Missense_Mutation	SNP	G	G	A	rs56358776	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	176	174	191	0	0.988636	0	G|0.698;A|0.302	0.302	strong	.	ESPL1	158	.	NM_012291	exon20	c.G4682A	p.R1561Q	GGCTCCGGCTCCC	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31239544	31239544	+	Silent	SNP	G	G	T	rs281860356	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	21	158	0	0.137255	0	.	.	weak	HLA-C_ENST00000383329,colon,carcinoma,0,2	HLA-C	92	2	NM_002117	exon2	c.C175A	p.R59R	CGAACCGCACGAA	.	scavenged	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1017596	1017596	+	Missense_Mutation	SNP	T	T	G	rs201522029	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1122	188	1106	1	0.167558	0.000904159	T|0.995;G|0.005	0.005	strong	MUC6_ENST00000421673,NS,carcinoma,0,1	MUC6	408	1	NM_005961	exon31	c.A5205C	p.Q1735H	TCGGGATTGGCTG	.	PASS	Atlas-SNP
FOCAD	54914	hgsc.bcm.edu	37	9	20948311	20948311	+	Silent	SNP	A	A	G	rs35470485	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	32	113	0	0.385542	0	A|0.933;G|0.067	0.067	strong	.	.	.	.	NM_017794	exon33	c.A3717G	p.G1239G	TCATGGATTGTCT	.	PASS	Atlas-SNP
PTPN13	5783	hgsc.bcm.edu	37	4	87692393	87692393	+	Missense_Mutation	SNP	G	G	A	rs12500797	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	361	154	326	0	0.426593	0	G|0.939;A|0.061	0.061	strong	PTPN13,NS,carcinoma,-2,1	PTPN13	203	1	NM_080685	exon31	c.G4888A	p.E1630K	TGTGTGGAGCAAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	50	100	0	0.526316	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
ZNF519	162655	hgsc.bcm.edu	37	18	14105853	14105853	+	Missense_Mutation	SNP	C	C	A	rs8094412	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	45	146	0	0.473684	0	C|0.863;A|0.137	0.137	strong	.	ZNF519	53	.	NM_145287	exon3	c.G686T	p.R229I	TAAATTCTTTGAT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507241	195507241	+	Missense_Mutation	SNP	G	G	A	rs71187729		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	20	64	2	0.0699301	0.03125	G|0.500;A|0.500	0.500	weak	MUC4_ENST00000463781,NS,carcinoma,-1,1	MUC4	1505	1	NM_018406	exon2	c.C11210T	p.A3737V	GTGGATGCTGAGG	.	scavenged	Atlas-SNP
HHIP	64399	hgsc.bcm.edu	37	4	145659064	145659064	+	Silent	SNP	T	T	C	rs11727676	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	26	48	0	0.553191	0	T|0.939;C|0.061	0.061	strong	.	HHIP	100	.	NM_022475	exon13	c.T2058C	p.I686I	GATCATTGACATG	.	PASS	Atlas-SNP
OR1L8	138881	hgsc.bcm.edu	37	9	125330739	125330739	+	Silent	SNP	G	G	A	rs1999182	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	54	99	0	0.415385	0	G|0.418;A|0.582	0.582	strong	.	OR1L8	90	.	NM_001004454	exon1	c.C18T	p.H6H	GCTGGTGTGGTTG	.	PASS	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	37	19	49964977	49964977	+	Missense_Mutation	SNP	C	C	G	rs1320303	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	77	113	0	0.987179	0	C|0.422;G|0.578	0.578	strong	.	ALDH16A1	54	.	NM_001145396	exon6	c.C679G	p.L227V	AATGTCCTCAGTG	.	PASS	Atlas-SNP
ZNF83	55769	hgsc.bcm.edu	37	19	53116643	53116643	+	Missense_Mutation	SNP	T	T	C	rs11545619	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	46	98	0	0.528736	0	T|0.885;C|0.115	0.115	strong	.	ZNF83	73	.	NM_018300	exon3	c.A1175G	p.H392R	ATTCTGTGATGTT	.	PASS	Atlas-SNP
RPS4X	6191	hgsc.bcm.edu	37	X	71493691	71493691	+	Silent	SNP	C	C	T	rs7580	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	158	273	0	0.993711	0	C|0.526;T|0.474	0.474	strong	.	RPS4X	20	.	NM_001007	exon5	c.G492A	p.L164L	AGTCTCCAAATCA	.	PASS	Atlas-SNP
SH3RF3	344558	hgsc.bcm.edu	37	2	110065649	110065649	+	Missense_Mutation	SNP	C	C	G	rs201796718	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	120	237	0	0.555556	0	C|0.999;G|0.001	0.001	weak	.	SH3RF3	62	.	NM_001099289	exon8	c.C1852G	p.Q618E	CAGGCTCAGGACC	.	PASS	Atlas-SNP
ANO9	338440	hgsc.bcm.edu	37	11	419706	419706	+	Missense_Mutation	SNP	T	T	C	rs114405390	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	37	77	0	0.578125	0	T|0.980;C|0.020	0.020	strong	.	ANO9	61	.	NM_001012302	exon20	c.A1810G	p.T604A	CGATGGTCTCCAG	.	PASS	Atlas-SNP
OR1I1	126370	hgsc.bcm.edu	37	19	15198851	15198851	+	Silent	SNP	A	A	T	rs16980313	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	70	117	0	0.472973	0	A|0.869;T|0.131	0.131	strong	.	OR1I1	58	.	NM_001004713	exon1	c.A975T	p.P325P	TGTTCCAGGATCA	.	PASS	Atlas-SNP
ANKMY1	51281	hgsc.bcm.edu	37	2	241451350	241451350	+	Silent	SNP	C	C	T	rs10427348	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	29	70	0	0.483333	0	C|0.881;T|0.119	0.119	strong	.	ANKMY1	112	.	NM_016552	exon10	c.G1947A	p.T649T	TGTGTCCGTGCTG	.	PASS	Atlas-SNP
PEX14	5195	hgsc.bcm.edu	37	1	10689942	10689942	+	Silent	SNP	G	G	T	rs11539794	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	44	107	0	0.517647	0	G|0.875;T|0.125	0.125	strong	PEX14,NS,carcinoma,0,1	PEX14	40	1	NM_004565	exon9	c.G1032T	p.G344G	CCTGGGGGTGCAG	.	PASS	Atlas-SNP
LONRF3	79836	hgsc.bcm.edu	37	X	118108785	118108785	+	Silent	SNP	T	T	C	rs3813933	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	96	191	1	1	0.0052356	T|0.560;C|0.440	0.440	strong	.	LONRF3	138	.	NM_001031855	exon1	c.T42C	p.A14A	GCCCGCTGAGGTC	.	PASS	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28617552	28617552	+	Silent	SNP	C	C	G	rs35906658	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	631	143	258	0	0.226624	0	C|0.646;G|0.354	0.354	strong	.	SULT1A1	53	.	NM_177534	exon6	c.G600C	p.P200P	CCTTTTCGGGTTC	.	PASS	Atlas-SNP
AURKB	9212	hgsc.bcm.edu	37	17	8108331	8108331	+	Missense_Mutation	SNP	A	A	G	rs1059476	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	191	213	1	1	0.00469484	A|0.222;G|0.778	0.778	strong	AURKB_ENST00000316199,colon,carcinoma,+1,2	AURKB	47	2	NM_004217	exon9	c.T893C	p.M298T	GCTCCCATGGGCA	.	PASS	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	37	3	46008790	46008790	+	Missense_Mutation	SNP	G	G	A	rs3796375	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	42	90	0	0.42	0	G|0.650;A|0.350	0.350	strong	.	FYCO1	115	.	NM_024513	exon8	c.C2036T	p.A679V	AAGCTCGCCTCCA	.	PASS	Atlas-SNP
NLRP8	126205	hgsc.bcm.edu	37	19	56467281	56467281	+	Silent	SNP	A	A	G	rs61750024	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	97	146	0	0.521505	0	A|0.939;G|0.061	0.061	strong	.	NLRP8	225	.	NM_176811	exon3	c.A1857G	p.E619E	GGAGGAAGCCTTT	.	PASS	Atlas-SNP
JAKMIP2	9832	hgsc.bcm.edu	37	5	147012291	147012291	+	Silent	SNP	G	G	A	rs3763094	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	118	172	0	0.659218	0	G|0.876;A|0.124	0.124	strong	.	JAKMIP2	154	.	NM_001270941	exon13	c.C1728T	p.D576D	TCTGGCGTCCTGT	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121238863	121238863	+	Silent	SNP	C	C	T	rs35766343	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	207	106	203	0	0.512077	0	C|0.939;T|0.061	0.061	strong	.	POLQ	273	.	NM_199420	exon9	c.G1323A	p.A441A	AGTTGCCGCCAAG	.	PASS	Atlas-SNP
PIM3	415116	hgsc.bcm.edu	37	22	50354819	50354819	+	Silent	SNP	C	C	A	rs11541025	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	12	29	0	0.521739	0	C|0.669;A|0.331	0.331	strong	.	PIM3	15	.	NM_001001852	exon2	c.C132A	p.A44A	GGGCGCCGTGCTG	.	PASS	Atlas-SNP
ASAP2	8853	hgsc.bcm.edu	37	2	9491017	9491017	+	Silent	SNP	C	C	T	rs4669385	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	53	94	0	1	0	C|0.109;T|0.891	0.891	strong	.	ASAP2	91	.	NM_001135191	exon12	c.C1104T	p.L368L	TGACCTCATTTCA	.	PASS	Atlas-SNP
LARS	51520	hgsc.bcm.edu	37	5	145506100	145506100	+	Silent	SNP	G	G	A	rs11540216	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	177	105	196	0	0.59322	0	G|0.767;T|0.009	.	strong	.	LARS	100	.	NM_020117	exon28	c.C2889T	p.N963N	TTTTCCGTTATTG	.	PASS	Atlas-SNP
EGFL6	25975	hgsc.bcm.edu	37	X	13635937	13635937	+	Silent	SNP	C	C	T	rs5978653	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	67	194	0	1	0	C|0.938;T|0.062	0.062	strong	.	EGFL6	111	.	NM_001167890	exon8	c.C867T	p.S289S	AAACAGCATGAAA	.	PASS	Atlas-SNP
SYNPO2	171024	hgsc.bcm.edu	37	4	119944611	119944611	+	Silent	SNP	G	G	T	rs1459058	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	103	237	0	0.52551	0	G|0.594;T|0.406	0.406	strong	.	SYNPO2	353	.	NM_001128934	exon2	c.G132T	p.G44G	CTCTGGGTCTGGG	.	PASS	Atlas-SNP
ESRP1	54845	hgsc.bcm.edu	37	8	95690579	95690579	+	Silent	SNP	T	T	C	rs12677519	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	138	138	0	1	0	T|0.494;C|0.506	0.506	strong	.	ESRP1	148	.	NM_001122825	exon13	c.T1800C	p.N600N	CATGAATTACACA	.	PASS	Atlas-SNP
SESN1	27244	hgsc.bcm.edu	37	6	109323519	109323519	+	Missense_Mutation	SNP	G	G	T	rs2273668	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	45	98	0	0.454545	0	G|0.927;T|0.073	0.073	strong	.	SESN1	29	.	NM_014454	exon2	c.C307A	p.L103I	GTCCTAGTGGTCG	.	PASS	Atlas-SNP
CHRNA3	1136	hgsc.bcm.edu	37	15	78894339	78894339	+	Silent	SNP	G	G	A	rs1051730	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	133	301	0	0.525692	0	G|0.754;A|0.246	0.246	strong	.	CHRNA3	56	.	NM_000743	exon5	c.C645T	p.Y215Y	GTGTTTGTAGCCT	.	PASS	Atlas-SNP
SLC12A4	6560	hgsc.bcm.edu	37	16	67979423	67979423	+	Silent	SNP	G	G	T	rs17851876	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	64	119	0	0.512	0	G|0.959;T|0.041	0.041	strong	.	SLC12A4	81	.	NM_001145962	exon21	c.C2887A	p.R963R	CCAGCCGCAGGGC	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97860487	97860487	+	Missense_Mutation	SNP	T	T	C	rs59466168	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	10	22	1	0.416667	0.0454545	T|0.500;C|0.500	0.500	strong	ANKRD36_ENST00000420699,NS,carcinoma,0,1	ANKRD36	170	1	NM_001164315	exon39	c.T2474C	p.L825S	CAGCCTTGAAGGT	.	scavenged	Atlas-SNP
DENND1A	57706	hgsc.bcm.edu	37	9	126220114	126220114	+	Silent	SNP	C	C	T	rs61736953	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	81	66	0	0.975904	0	C|0.921;T|0.079	0.079	strong	.	DENND1A	112	.	NM_024820	exon14	c.G1056A	p.R352R	GAACTGCCTCATG	.	PASS	Atlas-SNP
UPK3A	7380	hgsc.bcm.edu	37	22	45683246	45683246	+	Silent	SNP	C	C	T	rs2673088	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	95	0	1	0	C|0.404;T|0.596	0.596	strong	.	UPK3A	14	.	NM_006953	exon3	c.C402T	p.V134V	CCTGGTCAGGGTG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	69	100	0	0.570248	0	C|0.773;A|0.227	0.227	strong	.	DNHD1	198	.	NM_144666	exon14	c.C2536A	p.L846M	GTCGAGCTGGAGG	.	PASS	Atlas-SNP
PLXNC1	10154	hgsc.bcm.edu	37	12	94645255	94645255	+	Silent	SNP	A	A	G	rs2230757	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	348	170	290	1	0.488506	0.00344828	A|0.420;C|0.000;G|0.580;T|0.000	0.580	strong	.	PLXNC1	135	.	NM_005761	exon15	c.A2832G	p.T944T	TTCCACATGGTAT	.	PASS	Atlas-SNP
CCDC88B	283234	hgsc.bcm.edu	37	11	64117106	64117106	+	Missense_Mutation	SNP	C	C	T	rs144037797	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	103	212	0	0.483568	0	C|0.987;T|0.013	0.013	strong	.	CCDC88B	89	.	NM_032251	exon16	c.C2828T	p.T943I	TCAAGACCAGGGC	.	PASS	Atlas-SNP
PPHLN1	51535	hgsc.bcm.edu	37	12	42840082	42840082	+	Missense_Mutation	SNP	A	A	C	rs149559306	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	18	6	14	0	0.333333	0	A|0.992;C|0.008	0.008	strong	.	PPHLN1	101	.	NM_016488	exon12	c.A1340C	p.N447T	ATTGCAACTCACG	.	PASS	Atlas-SNP
FAM178A	55719	hgsc.bcm.edu	37	10	102684380	102684380	+	Missense_Mutation	SNP	C	C	A	rs10883563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	102	95	0	1	0	C|0.621;A|0.379	0.379	strong	.	FAM178A	9	.	NM_001136123	exon5	c.C1622A	p.S541Y	AAATTTCTGGGGG	.	PASS	Atlas-SNP
SLC17A9	63910	hgsc.bcm.edu	37	20	61595636	61595636	+	Silent	SNP	C	C	T	rs2248900	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	262	120	233	0	0.458015	0	C|0.831;T|0.169	0.169	strong	SLC17A9,caecum,carcinoma,0,1	SLC17A9	54	1	NM_022082	exon8	c.C879T	p.S293S	ATTCAGCGGGTTT	.	PASS	Atlas-SNP
ACTR5	79913	hgsc.bcm.edu	37	20	37394988	37394988	+	Silent	SNP	G	G	A	rs151070334	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	79	171	0	0.456647	0	G|0.996;A|0.004	0.004	strong	.	ACTR5	44	.	NM_024855	exon7	c.G1401A	p.G467G	GGCTGGGATTGCA	.	PASS	Atlas-SNP
WDR5	11091	hgsc.bcm.edu	37	9	137005023	137005023	+	Silent	SNP	C	C	T	rs11556390	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	63	118	0	0.488372	0	C|0.632;T|0.368	0.368	strong	.	WDR5	29	.	NM_052821	exon1	c.C24T	p.P8P	GAAGCCCGAGACC	.	PASS	Atlas-SNP
FMO1	2326	hgsc.bcm.edu	37	1	171249933	171249933	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	24	136	0	0.15	0	.	.	none	.	FMO1	79	.	NM_002021	exon6	c.C636T	p.L212L	GTTCCTCAGCACC	.	PASS	Atlas-SNP
C22orf42	150297	hgsc.bcm.edu	37	22	32550293	32550293	+	Missense_Mutation	SNP	C	C	T	rs8143121	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	453	206	416	0	0.454746	0	.	.	weak	.	C22orf42	37	.	NM_001010859	exon2	c.G245A	p.R82H	TTGGAGCGGGCGT	.	PASS	Atlas-SNP
ZNF813	126017	hgsc.bcm.edu	37	19	53993923	53993923	+	Missense_Mutation	SNP	C	C	T	rs61743337		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	334	144	292	1	0.431138	0.00342466	C|0.986;T|0.014	0.014	weak	.	ZNF813	81	.	NM_001004301	exon4	c.C437T	p.S146L	TTCATTCGCATCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	20	70	1	0.285714	0.0142857	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	.	scavenged	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167068256	167068256	+	Missense_Mutation	SNP	T	T	A	rs4619784	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	246	100	186	0	0.406504	0	T|0.693;A|0.307	0.307	strong	.	ZBBX	299	.	NM_024687	exon9	c.A480T	p.K160N	GTGAACTTTAGCA	.	PASS	Atlas-SNP
ALDH2	217	hgsc.bcm.edu	37	12	112230539	112230539	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	2	118	0	0.0151515	0	.	.	none	ALDH2_ENST00000261733,NS,malignant_melanoma,0,2	ALDH2	91	2	NM_000690	exon9	c.C1036T	p.R346W	AAGTCTCGGGTGG	.	scavenged	Atlas-SNP
OR4F17	81099	hgsc.bcm.edu	37	19	111016	111016	+	Missense_Mutation	SNP	T	T	G	rs71245814	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1864	602	1793	1	0.322961	0.000557725	T|0.500;G|0.500	0.500	strong	OR4F17,NS,carcinoma,0,2	OR4F17	5	2	NM_001005240	exon1	c.T338G	p.F113C	TGGGCTTTGACAG	.	scavenged	Atlas-SNP
HFM1	164045	hgsc.bcm.edu	37	1	91782011	91782011	+	Silent	SNP	G	G	A	rs74843031	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	57	143	1	0.425373	0.00699301	G|0.908;A|0.092	0.092	strong	HFM1,NS,carcinoma,0,1	HFM1	188	1	NM_001017975	exon26	c.C2835T	p.I945I	ATTTACGATTGCA	.	scavenged	Atlas-SNP
GRM6	2916	hgsc.bcm.edu	37	5	178416288	178416288	+	Silent	SNP	G	G	A	rs2071246	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	161	139	0	0.98773	0	G|0.261;A|0.739	0.739	strong	.	GRM6	149	.	NM_000843	exon5	c.C1131T	p.D377D	GGAATCGTCTGAC	.	PASS	Atlas-SNP
ZNF653	115950	hgsc.bcm.edu	37	19	11594928	11594928	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	16	99	0	0.16	0	.	.	none	.	ZNF653	48	.	NM_138783	exon8	c.C1599T	p.C533C	CTTGCCGCAGGTC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	57	53	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
ZAK	0	hgsc.bcm.edu	37	2	174128513	174128513	+	Missense_Mutation	SNP	C	C	T	rs3769148	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	87	130	0	0.977528	0	C|0.702;T|0.298	0.298	strong	.	ZAK	62	.	NM_016653	exon19	c.C1592T	p.S531L	TCCATTCGATTCA	.	PASS	Atlas-SNP
B9D1	27077	hgsc.bcm.edu	37	17	19247075	19247075	+	Missense_Mutation	SNP	G	G	A	rs4924987	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	67	43	0	0.985294	0	G|0.579;A|0.421	0.421	strong	.	B9D1	8	.	NM_001243473	exon6	c.C559T	p.H187Y	GGGGATGGGGGTA	.	PASS	Atlas-SNP
ANKRD27	84079	hgsc.bcm.edu	37	19	33096786	33096786	+	Silent	SNP	G	G	A	rs7247420	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	222	99	215	0	0.445946	0	G|0.792;A|0.208	0.208	strong	.	ANKRD27	86	.	NM_032139	exon24	c.C2448T	p.Y816Y	GCAGGCGTAAATG	.	PASS	Atlas-SNP
ZBTB37	84614	hgsc.bcm.edu	37	1	173855208	173855208	+	Silent	SNP	A	A	G	rs16846520	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	64	108	0	0.512	0	A|0.907;G|0.093	0.093	strong	.	ZBTB37	38	.	NM_001122770	exon5	c.A1458G	p.T486T	AGAGACAGTTGCT	.	PASS	Atlas-SNP
OR2T12	127064	hgsc.bcm.edu	37	1	248458760	248458760	+	Missense_Mutation	SNP	C	C	A	rs12135684	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	638	246	685	0	0.38558	0	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	.	PASS	Atlas-SNP
RBP5	83758	hgsc.bcm.edu	37	12	7277236	7277236	+	Missense_Mutation	SNP	T	T	A	rs2290237	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	36	87	0	0.36	0	T|0.686;A|0.314	0.314	strong	.	RBP5	20	.	NM_031491	exon3	c.A343T	p.M115L	ACAGCATCTCTCC	.	PASS	Atlas-SNP
PASK	23178	hgsc.bcm.edu	37	2	242077496	242077496	+	Missense_Mutation	SNP	C	C	T	rs1470414	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	36	66	0	0.521739	0	C|0.729;T|0.271	0.271	strong	PASK_ENST00000234040,NS,carcinoma,0,2	PASK	230	2	NM_015148	exon6	c.G748A	p.V250I	ACGTGACGGTGCC	.	PASS	Atlas-SNP
ZNF648	127665	hgsc.bcm.edu	37	1	182027022	182027022	+	Missense_Mutation	SNP	C	C	T	rs12564283	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	68	140	0	0.4	0	C|0.857;T|0.143	0.143	strong	.	ZNF648	111	.	NM_001009992	exon2	c.G124A	p.E42K	CGGCCTCCCCACC	.	PASS	Atlas-SNP
LANCL2	55915	hgsc.bcm.edu	37	7	55459563	55459563	+	Silent	SNP	A	A	G	rs2049497	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	27	63	0	0.519231	0	A|0.628;G|0.372	0.372	strong	.	LANCL2	54	.	NM_018697	exon2	c.A282G	p.T94T	GAAGACAGCTGAT	.	PASS	Atlas-SNP
CWH43	80157	hgsc.bcm.edu	37	4	49063872	49063872	+	Missense_Mutation	SNP	C	C	A	rs1051447	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	144	188	0	1	0	C|0.458;A|0.542	0.542	strong	.	CWH43	101	.	NM_025087	exon16	c.C2065A	p.H689N	AACCATCATTTTC	.	PASS	Atlas-SNP
ZNF628	89887	hgsc.bcm.edu	37	19	55995272	55995272	+	Silent	SNP	G	G	A	rs11550705	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	89	101	0	1	0	G|0.723;A|0.277	0.277	strong	.	ZNF628	75	.	NM_033113	exon3	c.G2712A	p.P904P	TGGCCCGGGCCCC	.	PASS	Atlas-SNP
VNN2	8875	hgsc.bcm.edu	37	6	133073844	133073844	+	Silent	SNP	C	C	T	rs33980664	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	37	89	0	0.45679	0	C|0.976;T|0.024	0.024	strong	.	VNN2	83	.	NM_004665	exon4	c.G582A	p.P194P	CAACTCCGGCTTT	.	PASS	Atlas-SNP
RIN3	79890	hgsc.bcm.edu	37	14	93118669	93118669	+	Silent	SNP	G	G	A	rs3742716	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	86	108	0	0.562092	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
PSRC1	84722	hgsc.bcm.edu	37	1	109824250	109824250	+	Silent	SNP	G	G	A	rs35358959	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	59	157	0	0.44697	0	G|0.944;A|0.056	0.056	strong	.	PSRC1	12	.	NM_001032291	exon4	c.C510T	p.N170N	CTTCATGTTGGAG	.	PASS	Atlas-SNP
PODN	127435	hgsc.bcm.edu	37	1	53544439	53544439	+	Silent	SNP	G	G	A	rs1288388	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	56	71	0	1	0	G|0.495;A|0.504	0.504	strong	.	PODN	86	.	NM_153703	exon8	c.G1401A	p.P467P	CAGCCCGCAGGTG	.	PASS	Atlas-SNP
BCMO1	53630	hgsc.bcm.edu	37	16	81314496	81314496	+	Missense_Mutation	SNP	C	C	T	rs7501331	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	89	86	0	0.988889	0	C|0.837;T|0.163	0.163	strong	.	BCMO1	53	.	NM_017429	exon8	c.C1136T	p.A379V	AAGTGGCATCTAC	.	PASS	Atlas-SNP
DHRS11	79154	hgsc.bcm.edu	37	17	34951481	34951481	+	Silent	SNP	C	C	T	rs73993036	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	65	138	0	0.528455	0	C|0.977;T|0.023	0.023	strong	.	DHRS11	10	.	NM_024308	exon2	c.C228T	p.D76D	AGAGGACATCCTC	.	PASS	Atlas-SNP
ZNF419	79744	hgsc.bcm.edu	37	19	58004931	58004931	+	Missense_Mutation	SNP	A	A	G	rs61731277	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	50	121	0	0.49505	0	A|0.171;G|0.829	0.829	strong	.	ZNF419	134	.	NM_001098491	exon5	c.A1009G	p.I337V	CAGAGAATTCACA	.	PASS	Atlas-SNP
ZNF836	162962	hgsc.bcm.edu	37	19	52660783	52660783	+	Silent	SNP	A	A	G	rs17696575	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	103	224	0	0.539267	0	A|0.836;G|0.164	0.164	strong	ZNF836_ENST00000322146,colon,carcinoma,-1,2	ZNF836	158	2	NM_001102657	exon5	c.T153C	p.P51P	ACATTTAGGAAGG	.	PASS	Atlas-SNP
RHBDL1	9028	hgsc.bcm.edu	37	16	726301	726301	+	Missense_Mutation	SNP	G	G	A	rs139776304	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	86	168	0	0.5375	0	G|0.999;A|0.001	0.001	strong	.	RHBDL1	14	.	NM_003961	exon1	c.G200A	p.R67H	GGGCCCGCACTCA	.	PASS	Atlas-SNP
ZNF286B	729288	hgsc.bcm.edu	37	17	18584123	18584123	+	Silent	SNP	A	A	G	rs200143783	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	47	176	0	0.324138	0	A|0.962;G|0.038	0.038	strong	.	ZNF286B	75	.	NM_001145045	exon3	c.T57C	p.S19S	ATGGGGAGAATCC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509498	195509498	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	19	106	1	0.0904762	0.00943396	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	1505	3	NM_018406	exon2	c.G8953A	p.A2985T	TGGATGCTGAGGA	.	scavenged	Atlas-SNP
DSE	29940	hgsc.bcm.edu	37	6	116720514	116720514	+	Missense_Mutation	SNP	C	C	T	rs35548455	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	34	69	0	0.414634	0	C|0.955;T|0.045	0.045	strong	.	DSE	98	.	NM_001080976	exon2	c.C101T	p.P34L	TGATTCCCTTCAC	.	PASS	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73434906	73434906	+	Missense_Mutation	SNP	G	G	A	rs10999947	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	32	76	0	0.477612	0	G|0.725;A|0.275	0.275	strong	.	CDH23	365	.	NM_022124	exon14	c.G1487A	p.S496N	AAGTCAGCTACTT	.	PASS	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	37	10	37438725	37438725	+	Missense_Mutation	SNP	C	C	G	rs200260827	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	412	40	323	0	0.0970874	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
MCF2L2	23101	hgsc.bcm.edu	37	3	183006918	183006918	+	Missense_Mutation	SNP	A	A	G	rs3732602	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	36	86	0	0.423529	0	A|0.973;G|0.027	0.027	strong	.	MCF2L2	164	.	NM_015078	exon14	c.T1766C	p.F589S	ACTTCAAATTTAG	.	PASS	Atlas-SNP
OR4L1	122742	hgsc.bcm.edu	37	14	20528505	20528505	+	Missense_Mutation	SNP	T	T	A	rs2775253	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	139	156	0	0.992857	0	T|0.639;A|0.361	0.361	strong	.	OR4L1	98	.	NM_001004717	exon1	c.T302A	p.M101K	CCCAGATGTTCTT	.	PASS	Atlas-SNP
OR8J3	81168	hgsc.bcm.edu	37	11	55904828	55904828	+	Missense_Mutation	SNP	A	A	G	rs11227321	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	230	113	209	0	0.491304	0	A|0.901;G|0.099	0.099	strong	OR8J3,NS,carcinoma,0,1	OR8J3	112	1	NM_001004064	exon1	c.T367C	p.Y123H	CCACATAGCGGTC	.	PASS	Atlas-SNP
FAM35A	54537	hgsc.bcm.edu	37	10	88930249	88930249	+	Missense_Mutation	SNP	A	A	T	rs11202365	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	135	142	0	1	0	A|0.698;T|0.302	0.302	strong	.	FAM35A	48	.	NM_019054	exon5	c.A1648T	p.S550C	GTAGTTAGTGAAG	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155219549	155219549	+	Missense_Mutation	SNP	T	T	G	rs74321456	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	155	154	0	0.99359	0	T|0.959;G|0.041	0.041	strong	.	DCHS2	594	.	NM_017639	exon18	c.A4552C	p.T1518P	CATCAGTCAGAAA	.	PASS	Atlas-SNP
UVSSA	57654	hgsc.bcm.edu	37	4	1369885	1369885	+	Silent	SNP	G	G	A	rs11724369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	133	125	0	1	0	G|0.793;A|0.207	0.207	strong	.	.	.	.	NM_020894	exon10	c.G1497A	p.A499A	CCGGGCGCCTGTG	.	PASS	Atlas-SNP
UBQLN3	50613	hgsc.bcm.edu	37	11	5529139	5529139	+	Silent	SNP	T	T	C	rs2234456	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	115	116	0	0.991379	0	T|0.748;C|0.252	0.252	strong	.	UBQLN3	107	.	NM_017481	exon2	c.A1650G	p.A550A	CGTCCCTGCTAGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509171	195509171	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	355	31	254	3	0.0873239	0.011811	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C9280T	p.L3094F	AGGAAAGGCTGGT	.	scavenged	Atlas-SNP
MLC1	23209	hgsc.bcm.edu	37	22	50502491	50502491	+	Missense_Mutation	SNP	T	T	C	rs11568188	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	15	160	0	0.25	0	T|0.905;C|0.095	0.095	strong	MLC1,rectum,carcinoma,0,2	MLC1	48	2	NM_015166	exon11	c.A1031G	p.N344S	GGGCCGTTCTGGG	.	PASS	Atlas-SNP
EPN3	55040	hgsc.bcm.edu	37	17	48619272	48619272	+	Silent	SNP	G	G	A	rs111678638	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	9	23	0	0.391304	0	G|0.934;A|0.066	0.066	strong	.	EPN3	32	.	NM_017957	exon10	c.G1653A	p.Q551Q	AAACCAGATGCGC	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	37	1	158597507	158597507	+	Missense_Mutation	SNP	G	G	C	rs3737515	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	95	76	0	1	0	G|0.758;C|0.242	0.242	strong	.	SPTA1	720	.	NM_003126	exon40	c.C5572G	p.L1858V	TCATTAGCAAGCT	.	PASS	Atlas-SNP
PDE1C	5137	hgsc.bcm.edu	37	7	31855569	31855569	+	Silent	SNP	G	G	A	rs2302450	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	292	124	277	0	0.424658	0	G|0.761;A|0.239	0.239	strong	PDE1C_ENST00000396191,NS,carcinoma,0,2	PDE1C	465	2	NM_001191058	exon16	c.C1962T	p.A654A	CTTCTCGGCTTTG	.	PASS	Atlas-SNP
STK31	56164	hgsc.bcm.edu	37	7	23757162	23757162	+	Missense_Mutation	SNP	G	G	C	rs6945306	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	263	128	255	0	0.486692	0	G|0.742;C|0.258	0.258	strong	.	STK31	175	.	NM_031414	exon4	c.G213C	p.Q71H	CCCCCAGGCCAGT	.	PASS	Atlas-SNP
SRD5A1	6715	hgsc.bcm.edu	37	5	6656210	6656210	+	Silent	SNP	G	G	A	rs55789931		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	85	132	0	0.524691	0	.	.	weak	SRD5A1,NS,carcinoma,0,1	SRD5A1	31	1	NM_001047	exon3	c.G480A	p.T160T	GTTAACGGGCATG	.	PASS	Atlas-SNP
IPP	3652	hgsc.bcm.edu	37	1	46195375	46195375	+	Missense_Mutation	SNP	T	T	C	rs28375469	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	46	132	0	0.345865	0	T|0.709;C|0.291	0.291	strong	IPP,NS,carcinoma,0,1	IPP	66	1	NM_001145349	exon4	c.A791G	p.K264R	GGAGATTTGCATA	.	PASS	Atlas-SNP
UBE2J1	51465	hgsc.bcm.edu	37	6	90047956	90047956	+	Silent	SNP	G	G	A	rs35213866	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	50	136	0	0.555556	0	G|0.993;A|0.007	0.007	strong	.	UBE2J1	28	.	NM_016021	exon5	c.C396T	p.Y132Y	AGGAGTGTAATCT	.	PASS	Atlas-SNP
GFM2	84340	hgsc.bcm.edu	37	5	74017590	74017590	+	Missense_Mutation	SNP	G	G	C	rs35080306	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	23	83	0	0.338235	0	G|0.984;C|0.016	0.016	strong	GFM2,NS,carcinoma,+1,1	GFM2	38	1	NM_032380	exon21	c.C2230G	p.R744G	GCGTTCGAAGCAC	.	PASS	Atlas-SNP
LMBRD2	92255	hgsc.bcm.edu	37	5	36142648	36142648	+	Silent	SNP	A	A	G	rs12658867	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	51	65	0	1	0	A|0.736;G|0.264	0.264	strong	LMBRD2,NS,carcinoma,0,1	LMBRD2	89	1	NM_001007527	exon3	c.T228C	p.N76N	GTTGCTATTCTCA	.	PASS	Atlas-SNP
SLC36A2	153201	hgsc.bcm.edu	37	5	150696498	150696498	+	Silent	SNP	G	G	A	rs428064	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	48	171	0	0.32	0	G|0.708;A|0.292	0.292	strong	.	SLC36A2	71	.	NM_181776	exon10	c.C1332T	p.D444D	CAGGGCGTCCTTG	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140993990	140993990	+	Missense_Mutation	SNP	C	C	T	rs80051600	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	114	729	0	0.897638	0	.	.	weak	.	MAGEC1	317	.	NM_005462	exon4	c.C800T	p.S267F	AGTCTTCTCTCCA	.	PASS	Atlas-SNP
PIK3C2B	5287	hgsc.bcm.edu	37	1	204403659	204403659	+	Silent	SNP	A	A	G	rs3747636	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	223	93	185	0	0.41704	0	A|0.650;G|0.350	0.350	strong	.	PIK3C2B	142	.	NM_002646	exon25	c.T3594C	p.N1198N	GTTGTCATTATGT	.	PASS	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	37	3	122419083	122419083	+	Missense_Mutation	SNP	C	C	A	rs13093808	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	87	97	0	1	0	C|0.915;A|0.085	0.085	strong	.	PARP14	242	.	NM_017554	exon6	c.C1682A	p.A561E	TCATAGCACAGAA	.	PASS	Atlas-SNP
CDKN2AIPNL	91368	hgsc.bcm.edu	37	5	133747354	133747354	+	Silent	SNP	C	C	G	rs141449831	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	476	161	421	0	0.338235	0	C|0.982;G|0.018	0.018	strong	.	CDKN2AIPNL	5	.	NM_080656	exon1	c.G192C	p.L64L	GGAGAGCAGCTGG	.	PASS	Atlas-SNP
LILRA4	23547	hgsc.bcm.edu	37	19	54848741	54848741	+	Silent	SNP	T	T	C	rs12985462	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	82	285	0	0.418367	0	T|0.855;C|0.145	0.145	strong	LILRA4,NS,carcinoma,0,1	LILRA4	91	1	NM_012276	exon5	c.A882G	p.R294R	GTAGCATCTGTAC	.	PASS	Atlas-SNP
OR4C46	119749	hgsc.bcm.edu	37	11	51516036	51516036	+	Missense_Mutation	SNP	G	G	A	rs11246608	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	284	119	279	0	0.419014	0	G|0.535;A|0.465	0.465	strong	.	OR4C46	96	.	NM_001004703	exon1	c.G755A	p.C252Y	TGCCCTGCATATT	.	PASS	Atlas-SNP
BCL7A	605	hgsc.bcm.edu	37	12	122468687	122468687	+	Silent	SNP	C	C	T	rs2272132	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	62	146	0	0.371257	0	C|0.964;T|0.036	0.036	strong	.	BCL7A	31	.	NM_020993	exon2	c.C174T	p.D58D	TGATGACGTGAGT	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	37	6	26468660	26468660	+	Silent	SNP	G	G	A	rs3734544	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	402	192	278	0	0.477612	0	G|0.824;A|0.176	0.176	strong	.	BTN2A1	118	.	NM_007049	exon8	c.G1467A	p.R489R	CTTCAGGTTGGGG	.	PASS	Atlas-SNP
HHLA2	11148	hgsc.bcm.edu	37	3	108081247	108081247	+	Silent	SNP	G	G	A	rs16854512	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	25	67	0	0.3125	0	G|0.836;A|0.164	0.164	strong	.	HHLA2	95	.	NM_007072	exon7	c.G1062A	p.A354A	CTCTGCGATTTTG	.	PASS	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	37	3	38080952	38080952	+	Missense_Mutation	SNP	T	T	G	rs7625806	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	22	7	70	0	0.318182	0	T|0.555;G|0.445	0.445	strong	DLEC1_ENST00000346219,NS,carcinoma,0,2	DLEC1	278	2	NM_007337	exon1	c.T236G	p.L79R	CTCAGCTGCTTCG	.	PASS	Atlas-SNP
CALCOCO2	10241	hgsc.bcm.edu	37	17	46939658	46939658	+	Missense_Mutation	SNP	C	C	G	rs10278	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	83	166	0	0.491124	0	C|0.673;G|0.327	0.327	strong	.	CALCOCO2	29	.	NM_001261390	exon13	c.C1237G	p.P413A	TCTTCCCCCAGCC	.	PASS	Atlas-SNP
LRP4	4038	hgsc.bcm.edu	37	11	46893108	46893108	+	Missense_Mutation	SNP	T	T	C	rs2306029	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	60	105	0	0.48	0	C|0.383;N|0.000	0.383	strong	.	LRP4	160	.	NM_002334	exon31	c.A4660G	p.S1554G	CATGGCTGACCAA	.	PASS	Atlas-SNP
THAP8	199745	hgsc.bcm.edu	37	19	36530332	36530332	+	Missense_Mutation	SNP	G	G	A	rs10420353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	13	33	0	0.866667	0	G|0.699;A|0.301	0.301	strong	.	THAP8	11	.	NM_152658	exon3	c.C565T	p.R189W	GGCACCGTTGCAG	.	PASS	Atlas-SNP
SHROOM2	357	hgsc.bcm.edu	37	X	9859098	9859098	+	Silent	SNP	A	A	G	rs6640543	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	159	361	0	0.99375	0	A|0.147;G|0.853	0.853	strong	.	SHROOM2	139	.	NM_001649	exon3	c.A399G	p.P133P	CTCCCCATTCACC	.	PASS	Atlas-SNP
RBMXL2	27288	hgsc.bcm.edu	37	11	7110548	7110548	+	Missense_Mutation	SNP	C	C	T	rs11041170	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	37	69	0	0.468354	0	C|0.795;T|0.205	0.205	strong	.	RBMXL2	47	.	NM_014469	exon1	c.C197T	p.A66V	CCGCCGCCAGAGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	280	278	297	0	0.992857	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
CCDC9	26093	hgsc.bcm.edu	37	19	47770015	47770015	+	Silent	SNP	A	A	C	rs10413121	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	88	182	0	0.460733	0	A|0.573;C|0.427	0.427	strong	CCDC9,NS,carcinoma,0,1	CCDC9	37	1	NM_015603	exon8	c.A868C	p.R290R	CAGTGGAGGCGCG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506482	195506482	+	Missense_Mutation	SNP	G	G	T	rs113936020	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	6	38	1	0.25	0.0263158	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,-1,1	MUC4	1505	1	NM_018406	exon2	c.C11969A	p.T3990N	GAGGAAGTGTCGG	.	scavenged	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	37	1	47614434	47614434	+	Missense_Mutation	SNP	C	C	T	rs61736429	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	82	247	0	0.37788	0	C|0.949;T|0.051	0.051	strong	CYP4A22,NS,carcinoma,-1,1	CYP4A22	60	1	NM_001010969	exon12	c.C1525T	p.L509F	AGGAGGCTCCCTA	.	PASS	Atlas-SNP
CAPNS2	84290	hgsc.bcm.edu	37	16	55601388	55601388	+	Silent	SNP	A	A	G	rs1502003	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	129	126	0	0.984733	0	A|0.574;G|0.425	0.425	strong	.	CAPNS2	21	.	NM_032330	exon1	c.A720G	p.E240E	CAAAGAATGGCTG	.	PASS	Atlas-SNP
CHGB	1114	hgsc.bcm.edu	37	20	5904040	5904040	+	Missense_Mutation	SNP	G	G	A	rs742711	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	23	46	0	0.511111	0	G|0.775;A|0.225	0.225	strong	CHGB,NS,carcinoma,0,1	CHGB	112	1	NM_001819	exon4	c.G1250A	p.R417H	AGGGACGCCATCA	.	PASS	Atlas-SNP
MX1	4599	hgsc.bcm.edu	37	21	42817930	42817930	+	Missense_Mutation	SNP	G	G	A	rs469390	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	59	122	0	0.472	0	G|0.513;A|0.487	0.487	strong	.	MX1	58	.	NM_001144925	exon15	c.G1135A	p.V379I	CAGAAAGTTAATG	.	PASS	Atlas-SNP
MRPL12	6182	hgsc.bcm.edu	37	17	79671298	79671298	+	Silent	SNP	C	C	T	rs148659191	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	60	91	0	0.6	0	C|0.996;T|0.004	0.004	strong	.	MRPL12	12	.	NM_002949	exon2	c.C99T	p.A33A	CTGTGCCGTGCGA	.	PASS	Atlas-SNP
CLEC17A	388512	hgsc.bcm.edu	37	19	14705574	14705574	+	Missense_Mutation	SNP	T	T	C	rs78269670	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	30	55	0	0.405405	0	T|0.943;C|0.057	0.057	strong	.	CLEC17A	27	.	NM_207390	exon7	c.T365C	p.L122P	TAGGCCTGGACCT	.	PASS	Atlas-SNP
ANLN	54443	hgsc.bcm.edu	37	7	36445855	36445855	+	Silent	SNP	A	A	C	rs61737563	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	60	159	0	0.46875	0	A|0.929;C|0.071	0.071	strong	.	ANLN	101	.	NM_018685	exon4	c.A553C	p.R185R	CCTCCCAGACCTC	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40392631	40392631	+	Missense_Mutation	SNP	G	G	A	rs80068592	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	717	176	229	0	0.245467	0	G|0.772;A|0.228	0.228	strong	.	FCGBP	416	.	NM_003890	exon16	c.C7873T	p.P2625S	AGTCGGGCACCAC	.	PASS	Atlas-SNP
MLC1	23209	hgsc.bcm.edu	37	22	50502526	50502526	+	Silent	SNP	A	A	G	rs11568187	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	28	164	0	0.388889	0	A|0.894;G|0.106	0.106	strong	.	MLC1	48	.	NM_015166	exon11	c.T996C	p.S332S	CCTTGCACTGACC	.	PASS	Atlas-SNP
MGA	23269	hgsc.bcm.edu	37	15	42032383	42032383	+	Missense_Mutation	SNP	C	C	G	rs17677991	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	94	193	0	0.52809	0	C|0.698;G|0.302	0.302	strong	.	MGA	264	.	NM_001080541	exon14	c.C4567G	p.P1523A	TTTGTCCCAGCAA	.	PASS	Atlas-SNP
OR8D1	283159	hgsc.bcm.edu	37	11	124180082	124180082	+	Missense_Mutation	SNP	A	A	G	rs4936919	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	73	133	0	0.480263	0	A|0.672;G|0.328	0.328	strong	.	OR8D1	53	.	NM_001002917	exon1	c.T581C	p.L194P	TCATTGAGGTGTG	.	PASS	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	37	7	4172006	4172006	+	Silent	SNP	C	C	T	rs13224870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	46	93	0	0.547619	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
ITPR3	3710	hgsc.bcm.edu	37	6	33641379	33641379	+	Silent	SNP	T	T	C	rs1803831	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	434	212	312	0	0.488479	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
DHCR7	1717	hgsc.bcm.edu	37	11	71146577	71146577	+	Silent	SNP	G	G	A	rs909217	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	28	47	0	0.717949	0	G|0.451;A|0.549	0.549	strong	DHCR7_ENST00000355527,NS,lymphoid_neoplasm,0,1	DHCR7	98	1	NM_001163817	exon9	c.C1272T	p.G424G	GTGGCCGCCGCCA	.	PASS	Atlas-SNP
CNTNAP5	129684	hgsc.bcm.edu	37	2	125281910	125281910	+	Missense_Mutation	SNP	C	C	T	rs17727261	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	56	139	0	0.455285	0	C|0.972;T|0.028	0.028	strong	.	CNTNAP5	405	.	NM_130773	exon9	c.C1355T	p.S452L	GGCACTCGGTTAG	.	PASS	Atlas-SNP
LRIT3	345193	hgsc.bcm.edu	37	4	110791413	110791413	+	Missense_Mutation	SNP	C	C	T	rs2347132	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	74	159	0	0.490066	0	C|0.787;N|0.001	.	strong	.	LRIT3	107	.	NM_198506	exon4	c.C1508T	p.T503M	CATTGACGTGGAA	.	PASS	Atlas-SNP
PABPN1L	390748	hgsc.bcm.edu	37	16	88932976	88932976	+	Silent	SNP	C	C	G	rs77252404	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	23	63	0	0.403509	0	C|0.957;G|0.043	0.043	strong	.	PABPN1L	25	.	NM_001080487	exon1	c.G39C	p.P13P	CTGAGTCGGGGGT	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150946773	150946773	+	Missense_Mutation	SNP	G	G	A	rs1432862	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	55	143	0	0.329341	0	G|0.528;A|0.472	0.472	strong	.	FAT2	465	.	NM_001447	exon1	c.C1720T	p.R574C	CTTGGCGGATAGA	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145368461	145368461	+	Missense_Mutation	SNP	A	A	C	rs12128680	bycluster;byfrequency;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	531	215	439	0	0.404896	0	A|0.899;C|0.101	0.101	strong	.	NBPF10	221	.	NM_001039703	exon84	c.A10439C	p.E3480A	TGATGGAAGTGGA	.	PASS	Atlas-SNP
C2orf70	339778	hgsc.bcm.edu	37	2	26799031	26799031	+	Silent	SNP	G	G	A	rs2272464	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	65	52	0	1	0	G|0.672;A|0.328	0.328	strong	.	C2orf70	26	.	NM_001105519	exon2	c.G336A	p.T112T	GCTTACGAATTTC	.	PASS	Atlas-SNP
KANK4	163782	hgsc.bcm.edu	37	1	62713246	62713246	+	Silent	SNP	G	G	A	rs10889315	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	45	123	0	0.371901	0	G|0.637;A|0.363	0.363	strong	KANK4,NS,carcinoma,0,1	KANK4	135	1	NM_181712	exon9	c.C2781T	p.H927H	TCCATCGTGGTCC	.	PASS	Atlas-SNP
RECQL5	9400	hgsc.bcm.edu	37	17	73625430	73625430	+	Silent	SNP	G	G	A	rs4788902	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	54	41	0	1	0	G|0.424;A|0.576	0.576	strong	.	RECQL5	77	.	NM_004259	exon16	c.C2073T	p.H691H	GGGCTCGTGCTCG	.	PASS	Atlas-SNP
CAPG	822	hgsc.bcm.edu	37	2	85625222	85625222	+	Silent	SNP	T	T	G	rs6885	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	359	182	342	0	0.506964	0	T|0.734;G|0.266	0.266	strong	.	CAPG	32	.	NM_001256139	exon8	c.A813C	p.P271P	GGCAAATGGGCTG	.	PASS	Atlas-SNP
ZAK	0	hgsc.bcm.edu	37	2	174055646	174055646	+	Silent	SNP	T	T	C	rs35853276	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	30	76	0	0.491803	0	T|0.858;C|0.142	0.142	strong	.	ZAK	62	.	NM_133646	exon6	c.T439C	p.L147L	GGAGTATTGAAGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	28	41	0	0.538462	0	C|0.781;T|0.219	0.219	strong	.	RBM19	117	.	NM_001146699	exon23	c.G2762A	p.R921Q	GTCTTCCGCCGCA	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911149	29911149	+	Silent	SNP	C	C	T	rs1059506	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	358	220	140	0	0.614525	0	C|0.865;T|0.135	0.135	strong	.	HLA-A	89	.	NM_001242758	exon3	c.C448T	p.L150L	ATCGCCCTGAACG	.	PASS	Atlas-SNP
SAA2	6289	hgsc.bcm.edu	37	11	18267465	18267465	+	Missense_Mutation	SNP	T	T	G	rs138605229	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	655	212	588	0	0.323664	0	T|0.995;G|0.005	0.005	strong	.	SAA2	22	.	NM_030754	exon3	c.A222C	p.E74D	GATCACTTCTGCA	.	PASS	Atlas-SNP
RNASE4	6038	hgsc.bcm.edu	37	14	21167576	21167576	+	Missense_Mutation	SNP	A	A	T	rs3748338	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	34	57	0	0.586207	0	A|0.887;N|0.000;T|0.113	0.113	strong	.	RNASE4	18	.	NM_002937	exon2	c.A46T	p.T16S	CTGCTGACCCTGC	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152188118	152188118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	2288	145	493	0	0.0633741	0	.	.	none	HRNR,NS,carcinoma,-1,2	HRNR	403	2	NM_001009931	exon3	c.G5987A	p.R1996H	CCTGAGCGAGACT	.	scavenged	Atlas-SNP
TSHZ1	10194	hgsc.bcm.edu	37	18	72998268	72998268	+	Silent	SNP	T	T	C	rs3744909	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	75	156	0	0.547445	0	T|0.676;C|0.324	0.324	strong	.	TSHZ1	104	.	NM_005786	exon2	c.T771C	p.D257D	GGAGGATGCCCAG	.	PASS	Atlas-SNP
CCDC18	343099	hgsc.bcm.edu	37	1	93720070	93720070	+	Missense_Mutation	SNP	C	C	G	rs12030843	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	55	154	0	1	0	C|0.809;G|0.191	0.191	strong	.	CCDC18	93	.	NM_206886	exon24	c.C3241G	p.L1081V	GAACAGCTTCGAG	.	PASS	Atlas-SNP
ZNF500	26048	hgsc.bcm.edu	37	16	4802386	4802386	+	Silent	SNP	G	G	T	rs3747602	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	10	10	15	0	1	0	G|0.445;T|0.555	0.555	strong	.	ZNF500	45	.	NM_021646	exon6	c.C1434A	p.A478A	GGCTTTGGCACCG	.	PASS	Atlas-SNP
AIPL1	23746	hgsc.bcm.edu	37	17	6331803	6331803	+	Silent	SNP	T	T	C	rs8075035	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	62	48	0	1	0	T|0.391;C|0.609	0.609	strong	.	AIPL1	34	.	NM_014336	exon3	c.A300G	p.L100L	CCGGGATAGGATG	.	PASS	Atlas-SNP
HSPA6	3310	hgsc.bcm.edu	37	1	161495040	161495040	+	Missense_Mutation	SNP	C	C	T	rs63749092	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	384	161	357	1	0.419271	0.00280112	C|0.897;T|0.103	0.103	strong	.	HSPA6	53	.	NM_002155	exon1	c.C592T	p.L198F	AACGTGCTCATTT	.	PASS	Atlas-SNP
IFI30	10437	hgsc.bcm.edu	37	19	18286008	18286008	+	Silent	SNP	G	G	C	rs200372	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	50	93	0	0.434783	0	G|0.994;C|0.006	0.006	strong	IFI30,NS,carcinoma,+1,1	IFI30	12	1	NM_006332	exon2	c.G291C	p.T97T	TGTCACGCTGGTG	.	PASS	Atlas-SNP
KLHL30	377007	hgsc.bcm.edu	37	2	239049540	239049540	+	Missense_Mutation	SNP	G	G	A	rs2241985	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	70	97	0	1	0	G|0.618;A|0.382	0.382	strong	.	KLHL30	79	.	NM_198582	exon2	c.G145A	p.G49S	CACCGCGGCCTCC	.	PASS	Atlas-SNP
SLC12A7	10723	hgsc.bcm.edu	37	5	1063998	1063998	+	Silent	SNP	G	G	A	rs7722287	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	337	123	319	0	0.364985	0	G|0.675;A|0.325	0.325	strong	SLC12A7,NS,carcinoma,0,1	SLC12A7	97	1	NM_006598	exon20	c.C2700T	p.Y900Y	CAAGTGGTACAAG	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75979782	75979782	+	Silent	SNP	G	G	T	rs8030131	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	76	170	0	0.5	0	G|0.567;T|0.433	0.433	strong	.	CSPG4	175	.	NM_001897	exon3	c.C3624A	p.R1208R	GGTGTCGCGGGGG	.	PASS	Atlas-SNP
IP6K3	117283	hgsc.bcm.edu	37	6	33690797	33690797	+	Silent	SNP	A	A	G	rs4711341	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	192	78	151	0	0.40625	0	A|0.615;G|0.385	0.385	strong	.	IP6K3	52	.	NM_001142883	exon7	c.T933C	p.S311S	AATGACAGAGAGG	.	PASS	Atlas-SNP
TBC1D2B	23102	hgsc.bcm.edu	37	15	78290635	78290635	+	Missense_Mutation	SNP	C	C	T	rs200408968	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	11	120	0	0.0696203	0	C|0.960;T|0.040	0.040	strong	TBC1D2B_ENST00000300584,bladder,carcinoma,0,17	TBC1D2B	104	17	NM_144572	exon13	c.G2759A	p.R920Q	GCGCGTCGGTTCC	.	scavenged	Atlas-SNP
PUS3	83480	hgsc.bcm.edu	37	11	125763746	125763746	+	Missense_Mutation	SNP	C	C	G	rs3088241	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	339	152	312	1	0.448378	0.00320513	C|0.522;G|0.478	0.478	strong	.	PUS3	33	.	NM_031307	exon4	c.G1380C	p.E460D	AGTATTCTCTTCC	.	PASS	Atlas-SNP
PRUNE2	158471	hgsc.bcm.edu	37	9	79318921	79318921	+	Silent	SNP	A	A	G	rs620985	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	104	208	0	0.435146	0	A|0.565;G|0.435	0.435	strong	.	PRUNE2	331	.	NM_015225	exon9	c.T7608C	p.C2536C	CTCTGTACATCTT	.	PASS	Atlas-SNP
LRP3	4037	hgsc.bcm.edu	37	19	33698448	33698448	+	Silent	SNP	G	G	A	rs3745973	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	18	80	0	0.439024	0	G|0.910;C|0.000;A|0.090	0.090	strong	.	LRP3	46	.	NM_002333	exon7	c.G2280A	p.E760E	GCTGGAGGCCAGC	.	PASS	Atlas-SNP
CSAG1	158511	hgsc.bcm.edu	37	X	151908845	151908845	+	Nonsense_Mutation	SNP	C	C	G	rs1894360	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	641	637	1123	1	0.99376	0.000890472	C|0.870;0|0.002	.	strong	.	CSAG1	27	.	NM_153478	exon4	c.C84G	p.Y28X	ACTGTACAGAGAC	.	PASS	Atlas-SNP
KCNN1	3780	hgsc.bcm.edu	37	19	18104350	18104350	+	Silent	SNP	G	G	A	rs376852061		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	101	242	0	0.457014	0	.	.	weak	.	KCNN1	74	.	NM_002248	exon10	c.G1359A	p.T453T	TAACACGCTTACC	.	PASS	Atlas-SNP
HK3	3101	hgsc.bcm.edu	37	5	176314639	176314639	+	Silent	SNP	G	G	A	rs6875296	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	43	121	1	0.333333	0.00826446	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
ODF3L1	161753	hgsc.bcm.edu	37	15	76017452	76017452	+	Missense_Mutation	SNP	C	C	T	rs55905564	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	55	64	0	1	0	C|0.806;T|0.194	0.194	strong	.	ODF3L1	10	.	NM_175881	exon2	c.C122T	p.P41L	CAGGTCCGGGGCC	.	PASS	Atlas-SNP
GBP3	2635	hgsc.bcm.edu	37	1	89479074	89479074	+	Missense_Mutation	SNP	C	C	T	rs4656078	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	80	76	0	1	0	C|0.661;T|0.339	0.339	strong	.	GBP3	53	.	NM_018284	exon6	c.G662A	p.R221Q	CAGAGTCGGGGCA	.	PASS	Atlas-SNP
MEN1	4221	hgsc.bcm.edu	37	11	64572602	64572602	+	Silent	SNP	G	G	A	rs2071313	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	102	103	0	1	0	G|0.698;A|0.302	0.302	strong	MEN1,NS,adenoma,-2,1	MEN1	442	1	NM_130800	exon9	c.C1269T	p.D423D	GATGCCGTCGTAG	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49433883	49433883	+	Missense_Mutation	SNP	G	G	A	rs189888707	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	76	126	0	0.444444	0	G|0.994;A|0.006	0.006	strong	MLL2_ENST00000301067,colon,carcinoma,0,2	MLL2	1173	2	NM_003482	exon31	c.C7670T	p.P2557L	GGTGGCGGGAGAC	.	PASS	Atlas-SNP
KRT6A	3853	hgsc.bcm.edu	37	12	52886490	52886490	+	Silent	SNP	A	A	G	rs711317	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	458	457	479	1	0.997817	0.00208768	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
ATP10D	57205	hgsc.bcm.edu	37	4	47593283	47593283	+	Missense_Mutation	SNP	G	G	C	rs4145944	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	66	130	0	0.594595	0	G|0.592;C|0.408	0.408	strong	.	ATP10D	168	.	NM_020453	exon23	c.G4166C	p.S1389T	CAGCAAGTTCCTG	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745822	50745822	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	255	26	202	5	0.101961	0.0247525	.	.	none	FAM186A_ENST00000327337,NS,carcinoma,0,6	FAM186A	181	6	NM_001145475	exon4	c.A4793C	p.E1598A	CCCAGTTCCTGCG	.	scavenged	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	37	2	141032088	141032088	+	Silent	SNP	C	C	T	rs1386356	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	89	168	0	0.486339	0	C|0.462;T|0.538	0.538	strong	.	LRP1B	1315	.	NM_018557	exon85	c.G13047A	p.T4349T	ATAGCGCGTTGGA	.	PASS	Atlas-SNP
TUBGCP5	114791	hgsc.bcm.edu	37	15	22853808	22853808	+	Silent	SNP	C	C	T	rs142094970	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	63	112	0	0.617647	0	C|0.988;T|0.012	0.012	strong	.	TUBGCP5	82	.	NM_052903	exon12	c.C1446T	p.H482H	CGTGCACGGGCAC	.	PASS	Atlas-SNP
ATMIN	23300	hgsc.bcm.edu	37	16	81077204	81077204	+	Silent	SNP	T	T	A	rs16954513	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	71	134	0	0.489655	0	T|0.929;A|0.071	0.071	strong	.	ATMIN	50	.	NM_015251	exon4	c.T1101A	p.P367P	CCTACCTCTTTTC	.	PASS	Atlas-SNP
ATMIN	23300	hgsc.bcm.edu	37	16	81076821	81076821	+	Missense_Mutation	SNP	T	T	C	rs2278022	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	64	145	0	0.435374	0	T|0.911;C|0.089	0.089	strong	.	ATMIN	50	.	NM_015251	exon4	c.T718C	p.S240P	AAGTTATCCAACA	.	PASS	Atlas-SNP
OR56A4	120793	hgsc.bcm.edu	37	11	6023818	6023818	+	Silent	SNP	G	G	A	rs10839221	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	165	163	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
CDR2L	30850	hgsc.bcm.edu	37	17	72999773	72999773	+	Silent	SNP	C	C	T	rs3744204	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	25	25	26	0	1	0	C|0.748;T|0.252	0.252	strong	.	.	.	.	NM_014603	exon5	c.C1002T	p.H334H	CCGGCACGCGGGC	.	PASS	Atlas-SNP
LAMTOR5	10542	hgsc.bcm.edu	37	1	110950439	110950439	+	Missense_Mutation	SNP	C	C	T	rs6674775	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	71	119	0	0.591667	0	C|0.604;T|0.396	0.396	strong	HBXIP,colon,carcinoma,0,1	.	.	1	NM_006402	exon1	c.G50A	p.S17N	CGAAGGCTTGGGC	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40368619	40368619	+	Silent	SNP	G	G	A	rs61732292	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	495	40	340	0	0.0808081	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
CEP68	23177	hgsc.bcm.edu	37	2	65298839	65298839	+	Silent	SNP	A	A	G	rs17849707	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	34	78	0	0.465753	0	A|0.773;G|0.227	0.227	strong	.	CEP68	69	.	NM_015147	exon3	c.A609G	p.T203T	CTCCACAGGCAGC	.	PASS	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	37	19	47585517	47585517	+	Silent	SNP	G	G	C	rs7250850	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	87	222	0	0.455497	0	G|0.552;C|0.448	0.448	strong	.	ZC3H4	96	.	NM_015168	exon10	c.C1254G	p.L418L	CTTTGGGAGTTCG	.	PASS	Atlas-SNP
ZNF519	162655	hgsc.bcm.edu	37	18	14105016	14105016	+	Missense_Mutation	SNP	C	C	A	rs61609068	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	19	66	0	0.327586	0	C|0.781;A|0.219	0.219	strong	.	ZNF519	53	.	NM_145287	exon3	c.G1523T	p.R508I	TGAATTCTCTGAT	.	PASS	Atlas-SNP
BRD8	10902	hgsc.bcm.edu	37	5	137475787	137475787	+	Silent	SNP	C	C	T	rs423258	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	120	181	0	0.631579	0	C|0.714;T|0.286	0.286	strong	BRD8,NS,carcinoma,0,1	BRD8	192	1	NM_139199	exon27	c.G3684A	p.V1228V	ATCATCCACTGGG	.	PASS	Atlas-SNP
NOD2	64127	hgsc.bcm.edu	37	16	50733859	50733859	+	Silent	SNP	C	C	G	rs2067085	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	19	25	0	0.542857	0	C|0.673;G|0.327	0.327	strong	NOD2,NS,carcinoma,0,1	NOD2	118	1	NM_022162	exon2	c.C534G	p.S178S	ACCGTCCCAGAGG	.	PASS	Atlas-SNP
GDPD5	81544	hgsc.bcm.edu	37	11	75152243	75152243	+	Missense_Mutation	SNP	C	C	T	rs571353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	239	234	1	0.940945	0.0042735	C|0.330;A|0.004	.	strong	GDPD5,NS,carcinoma,0,2	GDPD5	49	2	NM_030792	exon14	c.G1438A	p.A480T	ACAGGGCGTGGGA	.	PASS	Atlas-SNP
MYPN	84665	hgsc.bcm.edu	37	10	69933921	69933921	+	Missense_Mutation	SNP	G	G	A	rs10997975	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306	149	269	0	0.486928	0	A|0.370;G|0.630	0.370	strong	.	MYPN	189	.	NM_032578	exon11	c.G2072A	p.S691N	CTTTCAGCATGAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512343	195512343	+	Silent	SNP	G	G	A	rs113457754	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	422	121	166	0	0.28673	0	G|0.500;A|0.500	0.500	weak	MUC4_ENST00000463781,NS,carcinoma,0,4	MUC4	1505	4	NM_018406	exon2	c.C6108T	p.T2036T	AGTATCGGTGACA	.	PASS	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	37	4	57190356	57190356	+	Silent	SNP	G	G	A	rs7695701	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	291	137	259	0	0.47079	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
NARG2	79664	hgsc.bcm.edu	37	15	60734697	60734697	+	Silent	SNP	A	A	G	rs55905322		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	494	489	480	0	0.989879	0	.	.	weak	.	NARG2	82	.	NM_024611	exon12	c.T2343C	p.Y781Y	AACTCCATAACAA	.	PASS	Atlas-SNP
OR2B2	81697	hgsc.bcm.edu	37	6	27879200	27879200	+	Missense_Mutation	SNP	C	C	A	rs34788973	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	55	113	0	0.376712	0	C|0.943;A|0.057	0.057	strong	.	OR2B2	54	.	NM_033057	exon1	c.G898T	p.A300S	TAAAGGCTTCCTT	.	PASS	Atlas-SNP
PPT2	9374	hgsc.bcm.edu	37	6	32122472	32122472	+	Missense_Mutation	SNP	C	C	A	rs3096696	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	46	144	0	0.393162	0	C|0.825;A|0.175	0.175	strong	.	PPT2	19	.	NM_138717	exon2	c.C119A	p.A40E	ACCGCGCGTCCTA	.	PASS	Atlas-SNP
HEMGN	55363	hgsc.bcm.edu	37	9	100689693	100689693	+	Silent	SNP	A	A	G	rs1059003	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	49	97	0	0.453704	0	A|0.923;G|0.077	0.077	strong	.	HEMGN	55	.	NM_197978	exon4	c.T1428C	p.N476N	GACATCATTTTCT	.	PASS	Atlas-SNP
PI3	5266	hgsc.bcm.edu	37	20	43803613	43803613	+	Missense_Mutation	SNP	C	C	T	rs17333103	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	75	130	0	0.531915	0	C|0.864;T|0.136	0.136	strong	PI3,caecum,carcinoma,0,2	PI3	21	2	NM_002638	exon1	c.C50T	p.T17M	CTGGGACGCTGGT	.	PASS	Atlas-SNP
OR8G2	26492	hgsc.bcm.edu	37	11	124096122	124096122	+	Missense_Mutation	SNP	G	G	A	rs7946182	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	311	114	367	1	0.366559	0.0027248	G|0.653;A|0.347	0.347	strong	.	.	.	.	NM_001007249	exon1	c.G725A	p.R242H	GCATTCGCTCCAC	.	PASS	Atlas-SNP
KRTAP27-1	643812	hgsc.bcm.edu	37	21	31709691	31709691	+	Missense_Mutation	SNP	G	G	A	rs2244485	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	227	92	202	0	0.405286	0	G|0.654;A|0.346	0.346	strong	KRTAP27-1,NS,carcinoma,-1,1	KRTAP27-1	53	1	NM_001077711	exon1	c.C296T	p.A99V	TGGCACGCTGTCC	.	PASS	Atlas-SNP
OR51G2	81282	hgsc.bcm.edu	37	11	4936608	4936608	+	Missense_Mutation	SNP	C	C	G	rs12419598	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	37	92	0	0.552239	0	C|0.921;G|0.079	0.079	strong	.	OR51G2	70	.	NM_001005238	exon1	c.G286C	p.E96Q	TAATTTCTCGTGC	.	PASS	Atlas-SNP
IL7R	3575	hgsc.bcm.edu	37	5	35874575	35874575	+	Missense_Mutation	SNP	C	C	T	rs6897932	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	472	469	420	0	0.993644	0	C|0.810;T|0.190	0.190	strong	IL7R,NS,carcinoma,-1,3	IL7R	200	3	NM_002185	exon6	c.C731T	p.T244I	TACTAACCATCAG	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60908964	60908964	+	Silent	SNP	G	G	A	rs13044266	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	70	90	0	1	0	G|0.274;A|0.726	0.726	strong	LAMA5,caecum,carcinoma,0,1	LAMA5	268	1	NM_005560	exon23	c.C2871T	p.C957C	GTTGGCGCAGGTG	.	PASS	Atlas-SNP
FRMD1	79981	hgsc.bcm.edu	37	6	168463624	168463624	+	Missense_Mutation	SNP	G	G	A	rs902393	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	37	109	0	0.373737	0	G|0.932;A|0.068	0.068	strong	.	FRMD1	52	.	NM_024919	exon7	c.C820T	p.R274C	TGGGACGACCTTC	.	PASS	Atlas-SNP
AUH	549	hgsc.bcm.edu	37	9	94087622	94087622	+	Silent	SNP	T	T	G	rs7874056	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	39	96	0	0.438202	0	T|0.888;G|0.112	0.112	strong	.	AUH	32	.	NM_001698	exon4	c.A483C	p.I161I	TGCTCTTATTTTG	.	PASS	Atlas-SNP
OR8H3	390152	hgsc.bcm.edu	37	11	55889895	55889895	+	Missense_Mutation	SNP	C	C	T	rs61751933	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	109	187	2	0.519048	0.0106952	C|0.900;T|0.100	0.100	strong	OR8H3,NS,carcinoma,0,1	OR8H3	92	1	NM_001005201	exon1	c.C47T	p.T16M	TCCTTACGGGACT	.	scavenged	Atlas-SNP
TNKS	8658	hgsc.bcm.edu	37	8	9605648	9605648	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	16	112	0	0.141593	0	.	.	none	TNKS_ENST00000310430,NS,carcinoma,0,3	TNKS	198	3	NM_003747	exon18	c.G2758A	p.A920T	CTGTGCGCCCTCC	.	PASS	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	37	6	111694124	111694124	+	Missense_Mutation	SNP	C	C	G	rs3218599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	54	79	0	0.62069	0	C|0.985;G|0.015	0.015	strong	.	REV3L	386	.	NM_002912	exon13	c.G5434C	p.D1812H	CTGAGTCAAGAGA	.	PASS	Atlas-SNP
CEP120	153241	hgsc.bcm.edu	37	5	122685727	122685727	+	Missense_Mutation	SNP	C	C	G	rs1047437	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	389	164	332	0	0.421594	0	C|0.836;G|0.164	0.164	strong	.	CEP120	72	.	NM_153223	exon20	c.G2637C	p.Q879H	TCTCATCTGTTCC	.	PASS	Atlas-SNP
PLCG2	5336	hgsc.bcm.edu	37	16	81942134	81942134	+	Silent	SNP	G	G	A	rs372347274		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	76	143	0	0.558824	0	.	.	weak	.	PLCG2	276	.	NM_002661	exon17	c.G1671A	p.K557K	GGGCAAGGATGGC	.	PASS	Atlas-SNP
NRD1	4898	hgsc.bcm.edu	37	1	52290984	52290984	+	Silent	SNP	T	T	G	rs11205896	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	80	274	0	0.4	0	T|0.532;G|0.468	0.468	strong	.	NRD1	89	.	NM_002525	exon8	c.A1215C	p.G405G	AGGATGTCCAGGT	.	PASS	Atlas-SNP
TMEM86B	255043	hgsc.bcm.edu	37	19	55738746	55738746	+	Silent	SNP	G	G	A	rs4374298	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	32	39	0	0.941176	0	G|0.828;A|0.172	0.172	strong	.	TMEM86B	12	.	NM_173804	exon3	c.C484T	p.L162L	GCCACAGCATGGC	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745785	50745785	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	75	173	1	0.296443	0.00578035	.	.	none	FAM186A_ENST00000327337,NS,carcinoma,0,1	FAM186A	181	1	NM_001145475	exon4	c.T4830C	p.A1610A	CCCCTGAGCCTGC	.	scavenged	Atlas-SNP
CCDC171	203238	hgsc.bcm.edu	37	9	15784560	15784560	+	Silent	SNP	A	A	G	rs55780067	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	37	112	0	0.355769	0	A|0.966;G|0.034	0.034	strong	.	.	.	.	NM_173550	exon21	c.A3135G	p.A1045A	TAATGCATTACTT	.	PASS	Atlas-SNP
OR6N1	128372	hgsc.bcm.edu	37	1	158735892	158735892	+	Missense_Mutation	SNP	A	A	G	rs857827	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	134	119	0	1	0	A|0.287;G|0.713	0.713	strong	OR6N1,rectum,carcinoma,0,1	OR6N1	96	1	NM_001005185	exon1	c.T581C	p.I194T	ACATTTATAGACG	.	PASS	Atlas-SNP
WEE1	7465	hgsc.bcm.edu	37	11	9607032	9607032	+	Silent	SNP	A	A	G	rs10770042	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	41	112	0	0.418367	0	A|0.852;G|0.148	0.148	strong	.	WEE1	54	.	NM_003390	exon8	c.A1428G	p.E476E	AGTTGAAGAGGGC	.	PASS	Atlas-SNP
ERLIN1	10613	hgsc.bcm.edu	37	10	101912064	101912064	+	Missense_Mutation	SNP	T	T	C	rs2862954	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	249	278	0	1	0	A|0.005;C|0.270	0.270	strong	.	.	.	.	NM_006459	exon11	c.A871G	p.I291V	AAGCAATGGCCTG	.	PASS	Atlas-SNP
EYS	346007	hgsc.bcm.edu	37	6	66005970	66005970	+	Silent	SNP	G	G	A	rs9345601	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	97	70	0	1	0	G|0.404;A|0.596	0.596	strong	.	EYS	527	.	NM_001142800	exon12	c.C1809T	p.V603V	AACATTGACAACA	.	PASS	Atlas-SNP
HERC2	8924	hgsc.bcm.edu	37	15	28419566	28419566	+	Silent	SNP	T	T	C	rs201182375	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	310	22	368	0	0.0709677	0	T|0.988;C|0.013	0.013	strong	.	HERC2	501	.	NM_004667	exon65	c.A10032G	p.R3344R	AGGGTCTCTTGCA	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40376323	40376323	+	Missense_Mutation	SNP	A	A	G	rs377439998		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	374	8	319	0	0.0213904	0	.	.	weak	FCGBP,NS,carcinoma,0,3	FCGBP	416	3	NM_003890	exon25	c.T11981C	p.V3994A	TAGTAGACACCAT	.	scavenged	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133755528	133755528	+	Silent	SNP	A	A	G	rs2227985	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	39	100	0	0.438202	0	A|0.898;G|0.102	0.102	strong	.	ABL1	1632	.	NM_007313	exon9	c.A1554G	p.E518E	CCAGGAATCCAGT	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9060572	9060572	+	Silent	SNP	G	G	A	rs56405542	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	262	107	256	0	0.408397	0	G|0.788;A|0.212	0.212	strong	.	MUC16	4315	.	NM_024690	exon3	c.C26874T	p.G8958G	TGGGAGGCCTGGA	.	PASS	Atlas-SNP
GABRA2	2555	hgsc.bcm.edu	37	4	46314593	46314593	+	Silent	SNP	T	T	C	rs279858	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	225	108	186	0	0.48	0	T|0.616;C|0.384	0.384	strong	GABRA2,NS,carcinoma,0,2	GABRA2	134	2	NM_000807	exon5	c.A396G	p.K132K	TGATTTTTTCCCA	.	PASS	Atlas-SNP
NMD3	51068	hgsc.bcm.edu	37	3	160956548	160956548	+	Silent	SNP	A	A	G	rs11539155	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	305	124	289	0	0.406557	0	A|0.972;G|0.028	0.028	strong	.	NMD3	49	.	NM_015938	exon9	c.A687G	p.Q229Q	CTCTCAAGATATC	.	PASS	Atlas-SNP
MTFP1	51537	hgsc.bcm.edu	37	22	30823196	30823196	+	Silent	SNP	T	T	C	rs5753130	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	64	134	0	0.421053	0	T|0.514;C|0.486	0.486	strong	.	MTFP1	7	.	NM_016498	exon3	c.T234C	p.T78T	GGTGACTGTGGCT	.	PASS	Atlas-SNP
NBPF3	84224	hgsc.bcm.edu	37	1	21806667	21806667	+	Silent	SNP	C	C	G	rs12043777	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	8	287	0	0.0689655	0	C|0.874;G|0.126	0.126	strong	NBPF3,NS,carcinoma,0,2	NBPF3	55	2	NM_032264	exon11	c.T1332G	p.S444S	AAGTGACTTTTAC	.	scavenged	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11835331	11835331	+	Missense_Mutation	SNP	G	G	A	rs17612861	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	116	250	0	0.508772	0	G|0.766;A|0.233	0.233	strong	.	DNAH9	695	.	NM_001372	exon64	c.G12106A	p.D4036N	TTTCAGGACACTC	.	PASS	Atlas-SNP
HOXB1	3211	hgsc.bcm.edu	37	17	46608030	46608030	+	Silent	SNP	G	G	A	rs12946855	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	24	48	0	0.648649	0	G|0.833;A|0.167	0.167	strong	.	HOXB1	67	.	NM_002144	exon1	c.C237T	p.S79S	GGGCGCGGAGCTG	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41245466	41245466	+	Silent	SNP	G	G	A	rs1799949	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	277	160	242	1	0.577617	0.00413223	G|0.697;A|0.303	0.303	strong	BRCA1,NS,carcinoma,0,1	BRCA1	304	1	NM_007300	exon10	c.C2082T	p.S694S	AGTATCGCTGTCA	.	PASS	Atlas-SNP
XKR7	343702	hgsc.bcm.edu	37	20	30584710	30584710	+	Missense_Mutation	SNP	C	C	T	rs61750849	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	47	147	0	0.47	0	C|0.916;T|0.084	0.084	strong	XKR7,right_lower_lobe,carcinoma,-1,1	XKR7	62	1	NM_001011718	exon3	c.C1190T	p.A397V	ACGCCGCGCTCAC	.	PASS	Atlas-SNP
PSG9	5678	hgsc.bcm.edu	37	19	43763059	43763059	+	Missense_Mutation	SNP	C	C	T	rs12977717	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	41	64	0	0.414141	0	C|0.865;T|0.135	0.135	strong	PSG9,trunk,malignant_melanoma,+1,1	PSG9	77	1	NM_002784	exon4	c.G938A	p.R313Q	CGGTCCCGTATTT	.	PASS	Atlas-SNP
DDX51	317781	hgsc.bcm.edu	37	12	132626668	132626668	+	Missense_Mutation	SNP	T	T	C	rs1133690	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	43	75	0	0.488636	0	T|0.404;C|0.596	0.596	strong	.	DDX51	33	.	NM_175066	exon5	c.A884G	p.Q295R	ACCTGCTGGGCCA	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911225	29911225	+	Missense_Mutation	SNP	A	A	G	rs1059536	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	386	261	217	0	0.676166	0	A|0.785;G|0.215	0.215	strong	.	HLA-A	89	.	NM_001242758	exon3	c.A524G	p.H175R	CGGCCCATGAGGC	.	PASS	Atlas-SNP
SLC34A3	142680	hgsc.bcm.edu	37	9	140128085	140128085	+	Silent	SNP	T	T	C	rs28407527	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	70	153	0	0.466667	0	T|0.564;C|0.436	0.436	strong	.	SLC34A3	32	.	NM_001177317	exon8	c.T757C	p.L253L	CCCCAGTTGGACT	.	PASS	Atlas-SNP
TMEM2	23670	hgsc.bcm.edu	37	9	74332970	74332970	+	Missense_Mutation	SNP	G	G	A	rs25692	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	27	67	0	0.428571	0	G|0.882;T|0.006	.	strong	.	TMEM2	112	.	NM_013390	exon13	c.C2293T	p.P765S	TTTCGGGGTTTGC	.	PASS	Atlas-SNP
MUL1	79594	hgsc.bcm.edu	37	1	20827216	20827216	+	Silent	SNP	C	C	T	rs595980	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	33	106	0	0.333333	0	C|0.864;T|0.136	0.136	strong	MUL1,colon,carcinoma,-1,1	MUL1	34	1	NM_024544	exon4	c.G1026A	p.A342A	GGTGATCGCCTGT	.	PASS	Atlas-SNP
ITGB1	3688	hgsc.bcm.edu	37	10	33200468	33200468	+	Silent	SNP	G	G	A	rs2298139	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	77	174	0	0.458333	0	G|0.803;A|0.197	0.197	strong	.	ITGB1	156	.	NM_002211	exon13	c.C1839T	p.C613C	ACACTCGCAGATG	.	PASS	Atlas-SNP
TEX14	56155	hgsc.bcm.edu	37	17	56676368	56676368	+	Missense_Mutation	SNP	T	T	C	rs389389	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	86	216	0	0.502924	0	T|0.866;C|0.134	0.134	strong	.	TEX14	343	.	NM_001201457	exon14	c.A2356G	p.N786D	AGGCATTTGTAAA	.	PASS	Atlas-SNP
ZNF223	7766	hgsc.bcm.edu	37	19	44571154	44571154	+	Silent	SNP	T	T	C	rs4433920	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	42	81	0	0.531646	0	T|0.490;C|0.510	0.510	strong	.	ZNF223	61	.	NM_013361	exon5	c.T1173C	p.H391H	GCACCATAGAGCC	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	37	14	65260227	65260227	+	Silent	SNP	T	T	G	rs229591	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	66	124	0	0.468085	0	T|0.558;G|0.442	0.442	strong	.	SPTB	378	.	NM_001024858	exon13	c.A2154C	p.I718I	CTCCTTTATGCGG	.	PASS	Atlas-SNP
KIF23	9493	hgsc.bcm.edu	37	15	69728949	69728949	+	Silent	SNP	A	A	G	rs3825858	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	120	155	1	1	0.00645161	A|0.184;G|0.816	0.816	strong	.	KIF23	57	.	NM_138555	exon14	c.A1443G	p.P481P	TTTGCCATCATGC	.	PASS	Atlas-SNP
PRKD3	23683	hgsc.bcm.edu	37	2	37518045	37518045	+	Silent	SNP	G	G	C	rs10177176	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	66	115	0	0.44	0	G|0.650;C|0.350	0.350	strong	.	PRKD3	170	.	NM_005813	exon3	c.C525G	p.L175L	TCCCCAGAGCATC	.	PASS	Atlas-SNP
C3	718	hgsc.bcm.edu	37	19	6709848	6709848	+	Silent	SNP	C	C	T	rs2230204	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	26	87	0	0.448276	0	C|0.634;N|0.001	.	strong	.	C3	192	.	NM_000064	exon14	c.G1692A	p.V564V	TTTTACCACCAGC	.	PASS	Atlas-SNP
NUSAP1	51203	hgsc.bcm.edu	37	15	41672384	41672384	+	Silent	SNP	A	A	G	rs7168431	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	27	54	0	0.465517	0	A|0.876;G|0.124	0.124	strong	.	NUSAP1	32	.	NM_016359	exon11	c.A1326G	p.X442X	AGATTAATAATTT	.	PASS	Atlas-SNP
RTP4	64108	hgsc.bcm.edu	37	3	187088812	187088812	+	Missense_Mutation	SNP	C	C	T	rs3821812	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	149	152	0	1	0	C|0.657;N|0.000	.	strong	.	RTP4	20	.	NM_022147	exon2	c.C392T	p.T131M	ATGGCACGAGGAA	.	PASS	Atlas-SNP
KRTAP11-1	337880	hgsc.bcm.edu	37	21	32253513	32253513	+	Missense_Mutation	SNP	A	A	T	rs9636845	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	56	108	0	0.509091	0	A|0.892;T|0.108	0.108	strong	.	KRTAP11-1	46	.	NM_175858	exon1	c.T331A	p.C111S	GCTGACATCCACT	.	PASS	Atlas-SNP
ADAM21	8747	hgsc.bcm.edu	37	14	70924294	70924294	+	Silent	SNP	C	C	T	rs61738695	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	14	270	4	0.0752688	0.0148148	C|0.779;T|0.221	0.221	strong	ADAM21_ENST00000267499,NS,malignant_melanoma,+1,4	ADAM21	181	4	NM_003813	exon2	c.C78T	p.S26S	TATTTCCGGCTAC	.	scavenged	Atlas-SNP
PIK3C2B	5287	hgsc.bcm.edu	37	1	204433627	204433627	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	21	148	0	0.106599	0	.	.	none	.	PIK3C2B	142	.	NM_002646	exon5	c.G1140A	p.V380V	CACAGTCACCTTC	.	PASS	Atlas-SNP
KLF17	128209	hgsc.bcm.edu	37	1	44595410	44595410	+	Missense_Mutation	SNP	A	A	G	rs2485652	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	31	64	0	0.534483	0	A|0.702;G|0.298	0.298	strong	.	KLF17	92	.	NM_173484	exon2	c.A467G	p.N156S	CCCCCAATGGGCT	.	PASS	Atlas-SNP
MUC20	200958	hgsc.bcm.edu	37	3	195452770	195452770	+	Silent	SNP	G	G	A	rs71271396	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	663	265	667	1	0.399698	0.00149925	G|0.500;A|0.500	0.500	strong	.	MUC20	84	.	NM_152673	exon3	c.G783A	p.T261T	AACAACGACTTCC	.	PASS	Atlas-SNP
MXD4	10608	hgsc.bcm.edu	37	4	2252845	2252845	+	Silent	SNP	C	C	T	rs2233042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	79	199	1	0.5	0.00502513	C|0.969;T|0.031	0.031	strong	MXD4,NS,carcinoma,0,2	MXD4	13	2	NM_006454	exon5	c.G438A	p.T146T	AGAGCCCGTGCTA	.	scavenged	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	37	16	28508069	28508069	+	Silent	SNP	C	C	T	rs151174	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	102	173	0	0.502463	0	C|0.747;T|0.253	0.253	strong	.	APOBR	89	.	NM_018690	exon2	c.C1707T	p.G569G	GGGGGGCGCCCAG	.	PASS	Atlas-SNP
MAST3	23031	hgsc.bcm.edu	37	19	18234441	18234441	+	Silent	SNP	C	C	T	rs740691	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	49	23	57	0	0.469388	0	C|0.468;N|0.000	.	strong	.	MAST3	83	.	NM_015016	exon7	c.C522T	p.H174H	GAATCACGTGTAC	.	PASS	Atlas-SNP
TTLL1	25809	hgsc.bcm.edu	37	22	43447891	43447891	+	Silent	SNP	C	C	T	rs9607998	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	82	101	0	0.666667	0	C|0.971;T|0.029	0.029	strong	TTLL1,NS,carcinoma,-2,1	TTLL1	41	1	NM_012263	exon9	c.G894A	p.P298P	CATCACCGGCTGG	.	PASS	Atlas-SNP
FAAH	2166	hgsc.bcm.edu	37	1	46870761	46870761	+	Missense_Mutation	SNP	C	C	A	rs324420	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	151	187	0	0.993421	0	C|0.749;A|0.251	0.251	strong	.	FAAH	36	.	NM_001441	exon3	c.C385A	p.P129T	CAGGCCCCAAGGC	.	PASS	Atlas-SNP
DLG1	1739	hgsc.bcm.edu	37	3	196771554	196771554	+	Silent	SNP	T	T	C	rs35370245	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	74	127	0	0.649123	0	T|0.966;C|0.034	0.034	strong	.	DLG1	120	.	NM_004087	exon26	c.A2721G	p.K907K	GATCTGTTTCACT	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	37	1	248737734	248737734	+	Missense_Mutation	SNP	G	G	A	rs946770	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	673	10	890	0	0.0148588	0	.	.	weak	OR2T34,NS,carcinoma,0,4	OR2T34	72	4	NM_001001821	exon1	c.C325T	p.H109Y	TCAGGTGGAAGAA	.	scavenged	Atlas-SNP
EED	8726	hgsc.bcm.edu	37	11	85968623	85968623	+	Silent	SNP	C	C	T	rs974144	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	116	116	1	1	0.00862069	C|0.691;T|0.309	0.309	strong	EED,NS,carcinoma,0,1	EED	50	1	NM_003797	exon6	c.C619T	p.L207L	CTTCTCCTGTCAG	.	PASS	Atlas-SNP
DDX60L	91351	hgsc.bcm.edu	37	4	169382991	169382991	+	Silent	SNP	C	C	A	rs17612630	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	46	86	0	0.474227	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
CRIPAK	285464	hgsc.bcm.edu	37	4	1388379	1388379	+	Missense_Mutation	SNP	G	G	A	rs56109734	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	234	71	270	9	0.303419	0.0333333	G|0.996;A|0.004	0.004	strong	CRIPAK,NS,carcinoma,0,1	CRIPAK	185	1	NM_175918	exon1	c.G80A	p.C27Y	GCTCATGTGCCCA	.	scavenged	Atlas-SNP
RNASE3	6037	hgsc.bcm.edu	37	14	21360275	21360275	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	3	189	0	0.0205479	0	.	.	none	RNASE3,right_upper_lobe,carcinoma,-1,1	RNASE3	24	1	NM_002935	exon2	c.C430T	p.R144W	GATCCACGGGATT	.	scavenged	Atlas-SNP
COL12A1	1303	hgsc.bcm.edu	37	6	75844458	75844458	+	Silent	SNP	C	C	T	rs77425231	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	109	226	0	0.409774	0	C|0.993;T|0.007	0.007	strong	.	COL12A1	385	.	NM_004370	exon32	c.G5508A	p.T1836T	TCTTCCCGTCATC	.	PASS	Atlas-SNP
TCP10L2	401285	hgsc.bcm.edu	37	6	167592601	167592601	+	Missense_Mutation	SNP	G	G	A	rs200019718	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	21	96	0	0.185841	0	G|0.941;A|0.059	0.059	strong	.	TCP10L2	41	.	NM_001145121	exon6	c.G760A	p.G254R	GCAGCCGGAGTTG	.	PASS	Atlas-SNP
IMPG1	3617	hgsc.bcm.edu	37	6	76633385	76633385	+	Missense_Mutation	SNP	C	C	T	rs3778005	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	35	113	0	0.304348	0	C|0.832;T|0.168	0.168	strong	.	IMPG1	143	.	NM_001563	exon16	c.G2282A	p.S761N	TTAACACTAGTTT	.	PASS	Atlas-SNP
SYT6	148281	hgsc.bcm.edu	37	1	114680310	114680310	+	Missense_Mutation	SNP	G	G	A	rs41274114	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	119	228	0	0.545872	0	G|0.820;A|0.180	0.180	strong	.	SYT6	66	.	NM_205848	exon3	c.C623T	p.T208I	TCAAAGGTGGGGT	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139407932	139407932	+	Silent	SNP	A	A	G	rs2229971	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	138	138	102	0	1	0	A|0.484;G|0.516	0.516	strong	.	NOTCH1	1980	.	NM_017617	exon14	c.T2265C	p.N755N	ACACTCATTGTTG	.	PASS	Atlas-SNP
BCL2L13	23786	hgsc.bcm.edu	37	22	18209613	18209613	+	Silent	SNP	A	A	G	rs4488761	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	39	86	0	0.52	0	A|0.392;G|0.608	0.608	strong	.	BCL2L13	27	.	NM_001270726	exon6	c.A843G	p.S281S	ACTGTCAGCTAGC	.	PASS	Atlas-SNP
MADCAM1	8174	hgsc.bcm.edu	37	19	501725	501725	+	Missense_Mutation	SNP	G	G	A	rs62130833	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	134	188	0	0.531746	0	G|0.717;A|0.283	0.283	strong	.	MADCAM1	29	.	NM_130760	exon4	c.G724A	p.D242N	TCTCCCGACACCA	.	PASS	Atlas-SNP
MYO1C	4641	hgsc.bcm.edu	37	17	1387472	1387472	+	Silent	SNP	C	C	T	rs11538156	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	17	55	0	0.435897	0	T|0.112;G|0.000;C|0.888	0.112	strong	.	MYO1C	57	.	NM_001080779	exon2	c.G201A	p.L67L	CCGCCGCAGGTTC	.	PASS	Atlas-SNP
NDST1	3340	hgsc.bcm.edu	37	5	149907533	149907533	+	Silent	SNP	T	T	G	rs2273235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	20	86	0	0.273973	0	T|0.626;G|0.374	0.374	strong	.	NDST1	79	.	NM_001543	exon3	c.T681G	p.V227V	GACGGTTTTCCAG	.	PASS	Atlas-SNP
KCTD7	154881	hgsc.bcm.edu	37	7	66098384	66098384	+	Silent	SNP	G	G	A	rs3764904	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	64	106	0	0.533333	0	G|0.906;A|0.094	0.094	strong	.	KCTD7	26	.	NM_001167961	exon2	c.G267A	p.T89T	CCCCACGGACTCC	.	PASS	Atlas-SNP
YDJC	150223	hgsc.bcm.edu	37	22	21984205	21984205	+	Silent	SNP	A	A	G	rs710177	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	13	33	0	0.40625	0	A|0.605;G|0.395	0.395	strong	YDJC,rectum,carcinoma,0,1	YDJC	8	1	NM_001017964	exon1	c.T99C	p.A33A	GGTCACAGCCCCG	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	90020923	90020923	+	Silent	SNP	T	T	G	rs16869042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	141	129	0	1	0	G|0.336;N|0.001	0.336	strong	GPR98,NS,carcinoma,0,2	GPR98	605	2	NM_032119	exon47	c.T9927G	p.P3309P	AAATCCTAAAACT	.	PASS	Atlas-SNP
CLCA1	1179	hgsc.bcm.edu	37	1	86959173	86959173	+	Missense_Mutation	SNP	T	T	C	rs2791494	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	147	174	0	0.986577	0	T|0.169;C|0.831	0.831	strong	.	CLCA1	109	.	NM_001285	exon10	c.T1571C	p.M524T	GGACAATGCAGCC	.	PASS	Atlas-SNP
OR6K3	391114	hgsc.bcm.edu	37	1	158687896	158687896	+	Missense_Mutation	SNP	C	C	T	rs857705	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	54	89	0	0.54	0	C|0.776;T|0.224	0.224	strong	.	OR6K3	101	.	NM_001005327	exon1	c.G10A	p.G4R	GGTTTCCGCTCTC	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	50022040	50022040	+	Silent	SNP	G	G	A	rs41283275	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	17	38	0	0.414634	0	G|0.855;A|0.145	0.145	strong	.	WDFY4	205	.	NM_020945	exon31	c.G5253A	p.R1751R	GCAGAGGCACCAC	.	PASS	Atlas-SNP
TBX15	6913	hgsc.bcm.edu	37	1	119469188	119469188	+	Missense_Mutation	SNP	G	G	T	rs10494217	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	118	118	0	1	0	G|0.891;T|0.109	0.109	strong	.	TBX15	95	.	NM_152380	exon3	c.C148A	p.H50N	GCTGATGTGGATC	.	PASS	Atlas-SNP
RSPH4A	345895	hgsc.bcm.edu	37	6	116938232	116938232	+	Missense_Mutation	SNP	C	C	G	rs13213314	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	61	190	0	0.337017	0	C|0.925;G|0.075	0.075	strong	.	RSPH4A	54	.	NM_001161664	exon1	c.C446G	p.T149S	GAAACACCTTTCA	.	PASS	Atlas-SNP
MMEL1	79258	hgsc.bcm.edu	37	1	2535672	2535672	+	Missense_Mutation	SNP	G	G	A	rs143132254	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	99	223	0	0.512953	0	G|1.000;A|0.000	0.000	strong	.	MMEL1	64	.	NM_033467	exon10	c.C865T	p.R289W	CCTCCCGCAGCAA	.	PASS	Atlas-SNP
KRT5	3852	hgsc.bcm.edu	37	12	52908872	52908872	+	Missense_Mutation	SNP	C	C	T	rs11549949	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	31	82	0	0.492063	0	T|0.147;G|0.000;C|0.853;A|0.000	0.147	strong	.	KRT5	88	.	NM_000424	exon9	c.G1627A	p.G543S	CACCACCTAGGCC	.	PASS	Atlas-SNP
RBM12B	389677	hgsc.bcm.edu	37	8	94746698	94746698	+	Silent	SNP	G	G	T	rs3133974	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	65	99	0	0.541667	0	A|0.000;G|0.730;T|0.270	0.270	strong	.	RBM12B	78	.	NM_203390	exon3	c.C1941A	p.P647P	CTCCTCGGGGAGC	.	PASS	Atlas-SNP
BIN2	51411	hgsc.bcm.edu	37	12	51681903	51681903	+	Missense_Mutation	SNP	T	T	C	rs7954976	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	105	108	0	0.990566	0	T|0.183;C|0.817	0.817	strong	.	BIN2	58	.	NM_016293	exon11	c.A1585G	p.N529D	AGGAGTTAGCTGA	.	PASS	Atlas-SNP
CHPT1	56994	hgsc.bcm.edu	37	12	102108345	102108345	+	Missense_Mutation	SNP	T	T	C	rs3205421	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	124	275	0	0.457565	0	T|0.760;C|0.240	0.240	strong	.	CHPT1	27	.	NM_020244	exon3	c.T485C	p.F162S	TTTTTTTCTGCTC	.	PASS	Atlas-SNP
OR3A1	4994	hgsc.bcm.edu	37	17	3195503	3195503	+	Missense_Mutation	SNP	C	C	T	rs703903	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	338	173	327	0	0.511834	0	A|0.000;C|0.493;T|0.507	0.507	strong	.	OR3A1	46	.	NM_002550	exon1	c.G374A	p.R125Q	AGGAATCGGTCAT	.	PASS	Atlas-SNP
GPRC6A	222545	hgsc.bcm.edu	37	6	117130544	117130544	+	Missense_Mutation	SNP	A	A	C	rs28360548	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	71	121	0	0.651376	0	A|0.747;C|0.253	0.253	strong	.	GPRC6A	152	.	NM_148963	exon2	c.T431G	p.I144R	GAACCTATGACAG	.	PASS	Atlas-SNP
INADL	10207	hgsc.bcm.edu	37	1	62594593	62594593	+	Silent	SNP	C	C	T	rs2476194	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	47	117	0	0.516484	0	C|0.648;T|0.352	0.352	strong	.	INADL	179	.	NM_176877	exon41	c.C5247T	p.N1749N	GAAGAACGCCTAC	.	PASS	Atlas-SNP
MYPN	84665	hgsc.bcm.edu	37	10	69926334	69926334	+	Missense_Mutation	SNP	C	C	G	rs10823148	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	135	125	0	1	0	C|0.625;G|0.374	0.374	strong	.	MYPN	189	.	NM_032578	exon10	c.C1884G	p.F628L	TTCTTTCCAGGAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195510910	195510910	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	616	45	327	3	0.0730519	0.00917431	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C7541A	p.P2514H	GTGACAGGTAGAG	.	scavenged	Atlas-SNP
MSGN1	343930	hgsc.bcm.edu	37	2	17998025	17998025	+	Missense_Mutation	SNP	A	A	T	rs34069439	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	48	113	0	0.5	0	A|0.586;T|0.414	0.414	strong	.	MSGN1	39	.	NM_001105569	exon1	c.A240T	p.E80D	CAGCGAAGGCTGC	.	PASS	Atlas-SNP
CLIP2	7461	hgsc.bcm.edu	37	7	73753250	73753250	+	Silent	SNP	T	T	C	rs539518	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	23	27	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
TRPM6	140803	hgsc.bcm.edu	37	9	77367203	77367203	+	Missense_Mutation	SNP	T	T	C	rs55679040	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	30	56	0	0.47619	0	T|0.994;C|0.006	0.006	strong	.	TRPM6	377	.	NM_017662	exon29	c.A4988G	p.Q1663R	TGAGACTGCTTTA	.	PASS	Atlas-SNP
TMEM170B	100113407	hgsc.bcm.edu	37	6	11538534	11538534	+	Silent	SNP	C	C	T	rs821443	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	24	20	0	1	0	C|0.787;T|0.213	0.213	strong	.	TMEM170B	9	.	NM_001100829	exon1	c.C24T	p.H8H	CGACCACTCCATG	.	PASS	Atlas-SNP
GPRC6A	222545	hgsc.bcm.edu	37	6	117114290	117114290	+	Missense_Mutation	SNP	A	A	G	rs35937022	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	68	156	0	0.548387	0	A|0.803;G|0.197	0.197	strong	.	GPRC6A	152	.	NM_148963	exon6	c.T1796C	p.I599T	GAGAGAATCAGGA	.	PASS	Atlas-SNP
C6	729	hgsc.bcm.edu	37	5	41160293	41160293	+	Silent	SNP	A	A	G	rs62361567	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	78	162	0	0.382353	0	A|0.978;G|0.022	0.022	strong	.	C6	197	.	NM_001115131	exon11	c.T1635C	p.S545S	GGTGCCACTCTGA	.	PASS	Atlas-SNP
ERCC6	2074	hgsc.bcm.edu	37	10	50740876	50740876	+	Silent	SNP	G	G	C	rs2228524	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	98	88	0	1	0	G|0.381;C|0.619	0.619	strong	.	ERCC6	162	.	NM_000124	exon2	c.G135G	p.T45T	AAAGGAGAGGTAC	.	PASS	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	37	6	30893728	30893728	+	Silent	SNP	C	C	T	rs1043483	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	175	142	0	1	0	C|0.324;T|0.676	0.676	strong	.	VARS2	60	.	NM_001167734	exon29	c.C3123T	p.D1041D	GCTTGACAGCCTC	.	PASS	Atlas-SNP
MAGED2	10916	hgsc.bcm.edu	37	X	54838077	54838077	+	Silent	SNP	C	C	T	rs2071932	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	117	311	0	1	0	C|0.586;0|0.015	.	strong	.	MAGED2	74	.	NM_201222	exon6	c.C981T	p.S327S	CTATTCCTTGGAG	.	PASS	Atlas-SNP
C1orf106	55765	hgsc.bcm.edu	37	1	200881172	200881172	+	Silent	SNP	C	C	A	rs75412496		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	8	11	0	0.333333	0	C|0.250;A|0.750	0.750	weak	.	C1orf106	59	.	NM_018265	exon9	c.C1848A	p.R616R	CACCCGCCCCCAC	.	PASS	Atlas-SNP
TUBGCP6	85378	hgsc.bcm.edu	37	22	50659598	50659598	+	Missense_Mutation	SNP	C	C	T	rs149231425	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	105	151	0	0.648148	0	C|0.981;T|0.019	0.019	strong	TUBGCP6,NS,carcinoma,0,1	TUBGCP6	132	1	NM_020461	exon16	c.G3190A	p.G1064R	TCTCCCCGACCCT	.	PASS	Atlas-SNP
WDR19	57728	hgsc.bcm.edu	37	4	39216221	39216221	+	Silent	SNP	C	C	T	rs2167494	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	53	122	0	0.449153	0	C|0.721;T|0.279	0.279	strong	.	WDR19	96	.	NM_025132	exon10	c.C891T	p.C297C	TTTCAGCATTAAA	.	PASS	Atlas-SNP
SH3BP5	9467	hgsc.bcm.edu	37	3	15298590	15298590	+	Missense_Mutation	SNP	C	C	T	rs149397155	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	54	91	0	0.504673	0	C|0.999;T|0.001	0.001	strong	.	SH3BP5	32	.	NM_004844	exon8	c.G920A	p.C307Y	TTGCTACAGCTGT	.	PASS	Atlas-SNP
BCAS3	54828	hgsc.bcm.edu	37	17	58786625	58786625	+	Missense_Mutation	SNP	A	A	G	rs2643103	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	36	52	0	0.972973	0	A|0.222;G|0.778	0.778	strong	.	BCAS3	90	.	NM_001099432	exon5	c.A260G	p.N87S	CTGGGAATGAACC	.	PASS	Atlas-SNP
SERPINB2	5055	hgsc.bcm.edu	37	18	61570470	61570470	+	Silent	SNP	T	T	G	rs6102	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	102	209	0	0.582857	0	T|0.779;G|0.221	0.221	strong	SERPINB2,NS,carcinoma,0,1	SERPINB2	63	1	NM_002575	exon8	c.T1179G	p.P393P	TCATCCTTTTCTT	.	PASS	Atlas-SNP
CERKL	375298	hgsc.bcm.edu	37	2	182521578	182521578	+	Silent	SNP	G	G	A	rs1473295	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	41	94	0	0.471264	0	G|0.565;A|0.435	0.435	strong	.	CERKL	138	.	NM_001160277	exon1	c.C156T	p.F52F	GATCTCGAAGATG	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7735063	7735063	+	Missense_Mutation	SNP	T	T	G	rs57985356	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	70	129	0	0.479452	0	T|0.921;G|0.079	0.079	strong	.	DNAH2	498	.	NM_020877	exon81	c.T12696G	p.F4232L	CATCTTTGATGCC	.	PASS	Atlas-SNP
DNALI1	7802	hgsc.bcm.edu	37	1	38023316	38023316	+	Missense_Mutation	SNP	C	C	T	rs11749	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	37	88	0	0.373737	0	C|0.786;G|0.000;N|0.000;T|0.213	0.213	strong	.	DNALI1	25	.	NM_003462	exon2	c.C260T	p.A87V	AGCAGGCAGAAGA	.	PASS	Atlas-SNP
DPCR1	135656	hgsc.bcm.edu	37	6	30916718	30916718	+	Silent	SNP	G	G	A	rs2247178	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	46	85	0	0.5	0	G|0.972;A|0.028	0.028	strong	DPCR1_ENST00000462446,caecum,carcinoma,+1,2	DPCR1	99	2	NM_080870	exon2	c.G477A	p.T159T	TATAACGCCAGCA	.	PASS	Atlas-SNP
ZNF133	7692	hgsc.bcm.edu	37	20	18295730	18295730	+	Missense_Mutation	SNP	C	C	T	rs34099160	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	49	114	0	0.494949	0	C|0.894;T|0.106	0.106	strong	ZNF133,NS,carcinoma,0,1	ZNF133	63	1	NM_001083330	exon4	c.C232T	p.L78F	CCAGAGCTCTACC	.	PASS	Atlas-SNP
PLCG2	5336	hgsc.bcm.edu	37	16	81929527	81929527	+	Silent	SNP	C	C	G	rs13333716	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	62	113	0	0.516667	0	C|0.936;G|0.064	0.064	strong	.	PLCG2	276	.	NM_002661	exon13	c.C1188G	p.T396T	TGTTACCTCGAGG	.	PASS	Atlas-SNP
UGT2B28	54490	hgsc.bcm.edu	37	4	70160277	70160277	+	Missense_Mutation	SNP	T	T	G	rs6843900	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	91	126	0	0.978495	0	T|0.630;G|0.370	0.370	strong	UGT2B28,NS,carcinoma,0,1	UGT2B28	101	1	NM_053039	exon6	c.T1340G	p.I447R	TATCAATAATTCA	.	PASS	Atlas-SNP
GBP4	115361	hgsc.bcm.edu	37	1	89652094	89652094	+	Silent	SNP	G	G	A	rs1142887	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	121	459	0	0.98374	0	G|0.527;A|0.473	0.473	strong	.	GBP4	89	.	NM_052941	exon10	c.C1629T	p.A543A	CATTTGGGCCATG	.	PASS	Atlas-SNP
PRR23C	389152	hgsc.bcm.edu	37	3	138762707	138762707	+	Silent	SNP	C	C	G	rs7636403	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	45	88	0	0.463918	0	C|0.849;G|0.151	0.151	strong	.	PRR23C	31	.	NM_001134657	exon1	c.G756C	p.P252P	CTTGCACGGAGGG	.	PASS	Atlas-SNP
FNDC7	163479	hgsc.bcm.edu	37	1	109268573	109268573	+	Missense_Mutation	SNP	T	T	C	rs4494160	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	134	190	1	1	0.00526316	T|0.350;C|0.650	0.650	strong	.	FNDC7	113	.	NM_001144937	exon6	c.T1058C	p.V353A	TTTTTGTCTATAA	.	PASS	Atlas-SNP
HIST1H2AL	8332	hgsc.bcm.edu	37	6	27833174	27833174	+	Silent	SNP	A	A	G	rs41448545		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	271	104	296	1	0.383764	0.00337838	.	.	weak	.	HIST1H2AL	14	.	NM_003511	exon1	c.A42G	p.K14K	CGCCAAAGCCAAG	.	PASS	Atlas-SNP
MGME1	92667	hgsc.bcm.edu	37	20	17950545	17950545	+	Missense_Mutation	SNP	A	A	T	rs11551768	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	49	97	0	0.569767	0	A|0.900;T|0.100	0.100	strong	.	.	.	.	NM_052865	exon2	c.A43T	p.S15C	CTCAGGAGTTCAA	.	PASS	Atlas-SNP
C20orf203	284805	hgsc.bcm.edu	37	20	31238627	31238627	+	Silent	SNP	C	C	T	rs7272020	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	18	41	0	0.461538	0	C|0.860;T|0.140	0.140	strong	.	.	.	.	NM_182584	exon3	c.G192A	p.A64A	CCTTCCCGCCCCA	.	PASS	Atlas-SNP
QRFPR	84109	hgsc.bcm.edu	37	4	122301597	122301597	+	Missense_Mutation	SNP	A	A	C	rs34270076	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	93	156	0	0.516667	0	A|0.987;C|0.013	0.013	strong	.	QRFPR	65	.	NM_198179	exon1	c.T206G	p.V69G	GTCACCACGTAGA	.	PASS	Atlas-SNP
OR5A1	219982	hgsc.bcm.edu	37	11	59210761	59210761	+	Silent	SNP	C	C	G	rs11605572	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	38	105	0	0.404255	0	C|0.809;G|0.191	0.191	strong	OR5A1,right_upper_lobe,carcinoma,+1,1	OR5A1	72	1	NM_001004728	exon1	c.C120G	p.T40T	TCTTACCACCCTG	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56203411	56203411	+	Silent	SNP	G	G	C	rs3809980	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	125	157	1	0.992063	0.00636943	G|0.303;C|0.697	0.697	strong	.	ALPK2	487	.	NM_052947	exon5	c.C4008G	p.P1336P	GAGTCTGGGTTGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	78	164	0	0.5	0	C|0.747;T|0.253	0.253	strong	.	REV1	100	.	NM_001037872	exon5	c.G412A	p.V138M	TCTGCACACTGGA	.	PASS	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	37	4	175898988	175898988	+	Missense_Mutation	SNP	G	G	A	rs202055137		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	34	163	0	0.159624	0	.	.	weak	ADAM29,NS,carcinoma,0,2	ADAM29	262	2	NM_001130703	exon4	c.G2312A	p.R771Q	AACCTCGGGTGAT	.	PASS	Atlas-SNP
DNMT3L	29947	hgsc.bcm.edu	37	21	45670770	45670770	+	Missense_Mutation	SNP	T	T	C	rs7354779	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	82	147	0	0.565517	0	T|0.786;C|0.214	0.214	strong	.	DNMT3L	33	.	NM_013369	exon10	c.A832G	p.R278G	AGGGCCTGGGGCT	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52887427	52887427	+	Missense_Mutation	SNP	A	A	C	rs8104808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	65	123	0	0.546219	0	A|0.652;C|0.348	0.348	strong	.	ZNF880	45	.	NM_001145434	exon4	c.A594C	p.R198S	TTCAAGACTTGCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	39	65	0	0.464286	0	G|0.689;A|0.311	0.311	strong	.	MICA	21	.	NM_001177519	exon3	c.G592A	p.G198S	GAATCCGGCGTAG	.	PASS	Atlas-SNP
TRMT1	55621	hgsc.bcm.edu	37	19	13220734	13220734	+	Silent	SNP	G	G	A	rs142446751		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	21	65	0	0.35	0	G|1.000;A|0.000	0.000	weak	.	TRMT1	31	.	NM_001136035	exon9	c.C1101T	p.S367S	CCGGCCGCTGGGG	.	PASS	Atlas-SNP
WSB2	55884	hgsc.bcm.edu	37	12	118473054	118473054	+	Silent	SNP	T	T	C	rs9788041	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	63	93	0	0.508065	0	T|0.701;C|0.299	0.299	strong	.	WSB2	32	.	NM_018639	exon7	c.A909G	p.P303P	GCCTTCTGGAGAG	.	PASS	Atlas-SNP
POLR1E	64425	hgsc.bcm.edu	37	9	37493588	37493588	+	Silent	SNP	C	C	T	rs10758434	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	56	107	0	0.589474	0	C|0.796;T|0.204	0.204	strong	.	POLR1E	28	.	NM_022490	exon6	c.C435T	p.T145T	TACCACCAAACAG	.	PASS	Atlas-SNP
ZNF224	7767	hgsc.bcm.edu	37	19	44612014	44612014	+	Silent	SNP	A	A	T	rs3200505	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	67	132	0	0.5	0	A|0.314;T|0.686	0.686	strong	.	ZNF224	70	.	NM_013398	exon6	c.A1701T	p.P567P	AAAACCATTCAAA	.	PASS	Atlas-SNP
PADI2	11240	hgsc.bcm.edu	37	1	17402255	17402255	+	Silent	SNP	C	C	T	rs3818032	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	131	175	0	0.992424	0	C|0.399;T|0.601	0.601	strong	.	PADI2	72	.	NM_007365	exon12	c.G1374A	p.A458A	CACGGGCGCCTGC	.	PASS	Atlas-SNP
PFAS	5198	hgsc.bcm.edu	37	17	8166498	8166498	+	Silent	SNP	G	G	A	rs34778863	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	41	111	0	0.476744	0	G|0.973;A|0.027	0.027	strong	.	PFAS	91	.	NM_012393	exon13	c.G1482A	p.K494K	ACAGAAGATGAAC	.	PASS	Atlas-SNP
R3HCC1	203069	hgsc.bcm.edu	37	8	23148978	23148978	+	Silent	SNP	G	G	T	rs2272760	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	122	103	1	0.983871	0.00970874	G|0.820;T|0.180	0.180	strong	.	R3HCC1	11	.	NM_001136108	exon5	c.G396T	p.V132V	CCACGTGGTAGAG	.	PASS	Atlas-SNP
ISM1	140862	hgsc.bcm.edu	37	20	13269248	13269248	+	Silent	SNP	C	C	T	rs3827705	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	65	97	0	0.52	0	C|0.906;T|0.094	0.094	strong	.	ISM1	41	.	NM_080826	exon4	c.C705T	p.N235N	CGGGAACGGCAAC	.	PASS	Atlas-SNP
TRIM46	80128	hgsc.bcm.edu	37	1	155148520	155148520	+	Missense_Mutation	SNP	G	G	A	rs80254867	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	139	198	0	0.551587	0	G|0.985;A|0.015	0.015	strong	.	TRIM46	79	.	NM_025058	exon3	c.G482A	p.R161H	GGTACCGCCAGAG	.	PASS	Atlas-SNP
USP6NL	9712	hgsc.bcm.edu	37	10	11504687	11504687	+	Missense_Mutation	SNP	G	G	A	rs41291253	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	42	75	0	0.5	0	G|0.997;A|0.003	0.003	strong	.	USP6NL	57	.	NM_001080491	exon14	c.C2291T	p.T764M	CCCTGCGTCTCAG	.	PASS	Atlas-SNP
TRAPPC10	7109	hgsc.bcm.edu	37	21	45479055	45479055	+	Silent	SNP	C	C	T	rs2838475	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	35	75	0	0.426829	0	C|0.929;T|0.071	0.071	strong	.	TRAPPC10	109	.	NM_003274	exon6	c.C750T	p.D250D	ACTGGACGCCCTC	.	PASS	Atlas-SNP
METTL5	29081	hgsc.bcm.edu	37	2	170678476	170678476	+	Silent	SNP	G	G	A	rs35417312	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	35	68	0	0.555556	0	G|0.965;A|0.035	0.035	strong	.	METTL5	24	.	NM_014168	exon2	c.C201T	p.I67I	AGTTCCGATGCTA	.	PASS	Atlas-SNP
C1orf141	400757	hgsc.bcm.edu	37	1	67561090	67561090	+	Missense_Mutation	SNP	T	T	C	rs72933970	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	37	82	0	0.468354	0	T|0.903;C|0.097	0.097	strong	.	C1orf141	58	.	NM_001276351	exon7	c.A431G	p.Q144R	TTCATCTGTGGAG	.	PASS	Atlas-SNP
EPM2A	7957	hgsc.bcm.edu	37	6	146007332	146007332	+	Silent	SNP	C	C	T	rs35230590	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	62	147	0	0.397436	0	C|0.823;T|0.177	0.177	strong	.	EPM2A	21	.	NM_005670	exon2	c.G402A	p.G134G	GGTGTGCCCAGTG	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25023444	25023444	+	Missense_Mutation	SNP	G	G	T	rs201546887		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	421	38	394	1	0.0902613	0.00253807	.	.	weak	GGT1,NS,carcinoma,0,1	GGT1	68	1	NM_013430	exon12	c.G1066T	p.A356S	CTCCGGGCCCAGA	.	scavenged	Atlas-SNP
PDE3A	5139	hgsc.bcm.edu	37	12	20522252	20522252	+	Missense_Mutation	SNP	G	G	A	rs12305038	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	14	14	20	1	1	0.05	G|0.663;A|0.337	0.337	strong	PDE3A,NS,carcinoma,0,1	PDE3A	184	1	NM_000921	exon1	c.G34A	p.D12N	GTCAGGGACAAGC	.	scavenged	Atlas-SNP
ZNF443	10224	hgsc.bcm.edu	37	19	12542772	12542772	+	Missense_Mutation	SNP	C	C	T	rs17846016	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	211	100	203	0	0.473934	0	T|1.000;|0.000	1.000	weak	.	ZNF443	63	.	NM_005815	exon4	c.G214A	p.V72I	TTTCAACAAATCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	118	104	1	0.991597	0.00961538	G|0.629;A|0.371	0.371	strong	.	OXA1L	49	.	NM_005015	exon1	c.G78A	p.L26L	TGATCTGCGGCTA	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17265416	17265416	+	Missense_Mutation	SNP	G	G	T	rs114323849	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	51	112	0	0.408	0	G|0.972;T|0.028	0.028	strong	CROCC,NS,carcinoma,0,1	CROCC	185	1	NM_014675	exon12	c.G1387T	p.D463Y	TTGTCAGACTCTG	.	PASS	Atlas-SNP
SAMD9	54809	hgsc.bcm.edu	37	7	92734451	92734451	+	Silent	SNP	A	A	G	rs6965201	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	60	142	0	0.508475	0	A|0.525;G|0.475	0.475	strong	.	SAMD9	239	.	NM_001193307	exon2	c.T960C	p.Y320Y	CTGGAAATAATCA	.	PASS	Atlas-SNP
FUT5	2527	hgsc.bcm.edu	37	19	5867154	5867154	+	Missense_Mutation	SNP	G	G	A	rs61744945	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	72	209	0	0.503497	0	G|0.900;A|0.100	0.100	strong	.	FUT5	29	.	NM_002034	exon2	c.C583T	p.P195S	GCGGTGGGTGGGC	.	PASS	Atlas-SNP
PRIM1	5557	hgsc.bcm.edu	37	12	57133140	57133140	+	Silent	SNP	T	T	G	rs1131514	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	61	61	94	0	1	0	T|0.243;G|0.376	0.376	strong	PRIM1,NS,carcinoma,0,1	PRIM1	22	1	NM_000946	exon10	c.A990C	p.I330I	CACAGATATGCGA	.	PASS	Atlas-SNP
PINK1	65018	hgsc.bcm.edu	37	1	20971158	20971158	+	Missense_Mutation	SNP	A	A	T	rs139226733	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	24	56	0	0.470588	0	A|0.999;T|0.001	0.001	strong	.	PINK1	37	.	NM_032409	exon4	c.A952T	p.M318L	CTCGTTATGAAGA	.	PASS	Atlas-SNP
PTPN6	5777	hgsc.bcm.edu	37	12	7064352	7064352	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	5	121	0	0.0357143	0	.	.	none	PTPN6,NS,carcinoma,0,2	PTPN6	42	2	NM_080548	exon5	c.C561T	p.D187D	CTTCGACAGCCTC	.	scavenged	Atlas-SNP
ADAMTS13	11093	hgsc.bcm.edu	37	9	136287582	136287582	+	Missense_Mutation	SNP	C	C	T	rs34024143	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	32	56	0	0.492308	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
WSB1	26118	hgsc.bcm.edu	37	17	25639329	25639329	+	Silent	SNP	C	C	T	rs61761626	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	64	182	1	0.415584	0.00549451	C|0.994;T|0.006	0.006	strong	WSB1,NS,carcinoma,+1,1	WSB1	29	1	NM_015626	exon9	c.C1200T	p.P400P	GATGCCCACCCAA	.	scavenged	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43540887	43540887	+	Silent	SNP	A	A	C	rs17339479	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	63	131	0	0.488372	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
NLRP2	55655	hgsc.bcm.edu	37	19	55494157	55494157	+	Missense_Mutation	SNP	G	G	A	rs4306647	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	77	141	0	0.52027	0	G|0.896;A|0.104	0.104	strong	.	NLRP2	161	.	NM_017852	exon6	c.G1091A	p.R364K	AGGACAGGAGGGC	.	PASS	Atlas-SNP
PIH1D1	55011	hgsc.bcm.edu	37	19	49949652	49949652	+	Missense_Mutation	SNP	G	G	A	rs7462	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	137	249	1	0.524904	0.00401606	G|0.723;A|0.277	0.277	strong	.	PIH1D1	23	.	NM_017916	exon9	c.C860T	p.P287L	GGCACCGGCAGAA	.	PASS	Atlas-SNP
CYP1A1	1543	hgsc.bcm.edu	37	15	75012987	75012987	+	Missense_Mutation	SNP	G	G	T	rs1799814	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	45	98	0	0.381356	0	G|0.968;T|0.032	0.032	strong	.	CYP1A1	60	.	NM_000499	exon7	c.C1382A	p.T461N	GCAATGGTCTCAC	.	PASS	Atlas-SNP
PCDHA1	56147	hgsc.bcm.edu	37	5	140168151	140168151	+	Missense_Mutation	SNP	G	G	T	rs2240695	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	294	85	301	0	0.289116	0	G|0.481;T|0.519	0.519	strong	.	PCDHA1	387	.	NM_031410	exon1	c.G2276T	p.C759F	GGGTGTGCTCTAG	.	PASS	Atlas-SNP
GAS2L1	10634	hgsc.bcm.edu	37	22	29704125	29704125	+	Silent	SNP	C	C	T	rs11090564	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	26	12	55	0	0.461538	0	C|0.704;T|0.296	0.296	strong	GAS2L1_ENST00000333679,NS,carcinoma,0,4	GAS2L1	54	4	NM_152237	exon2	c.C30T	p.G10G	CGCGGGCTCGGCG	.	PASS	Atlas-SNP
FBXW10	10517	hgsc.bcm.edu	37	17	18653188	18653188	+	Missense_Mutation	SNP	G	G	T	rs17852531		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	686	200	695	1	0.291545	0.00143885	T|1.000;|0.000	1.000	weak	.	FBXW10	82	.	NM_001267585	exon3	c.G824T	p.R275L	AATACCGAGACTT	.	PASS	Atlas-SNP
SLC7A13	157724	hgsc.bcm.edu	37	8	87229702	87229702	+	Silent	SNP	A	A	G	rs4546639	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	33	88	0	0.4125	0	A|0.858;G|0.142	0.142	strong	.	SLC7A13	97	.	NM_138817	exon3	c.T1176C	p.Y392Y	TACCTTATAAGGT	.	PASS	Atlas-SNP
LPPR3	0	hgsc.bcm.edu	37	19	814680	814680	+	Silent	SNP	G	G	T	rs56944467	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	11	37	0	0.297297	0	G|0.886;T|0.114	0.114	strong	.	.	.	.	NM_024888	exon6	c.C669A	p.A223A	GTGAGGGGCCGGA	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22201438	22201438	+	Silent	SNP	C	C	T	rs41307806	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	61	185	0	0.451852	0	C|0.950;T|0.050	0.050	strong	HSPG2,NS,carcinoma,0,1	HSPG2	311	1	NM_005529	exon26	c.G3360A	p.A1120A	TTCCAGCGCGGGG	.	PASS	Atlas-SNP
NRG1	3084	hgsc.bcm.edu	37	8	32611970	32611970	+	Missense_Mutation	SNP	G	G	T	rs74942016	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	69	172	0	0.367021	0	G|0.968;T|0.032	0.032	strong	.	NRG1	260	.	NM_013956	exon9	c.G796T	p.V266L	ATGTGTGTGGTGG	.	PASS	Atlas-SNP
ISL2	64843	hgsc.bcm.edu	37	15	76630717	76630717	+	Silent	SNP	C	C	T	rs62028361	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	14	6	11	0	0.428571	0	C|0.925;T|0.075	0.075	strong	.	ISL2	20	.	NM_145805	exon3	c.C373T	p.L125L	CAGCTGCTGCCTG	.	PASS	Atlas-SNP
TREML4	285852	hgsc.bcm.edu	37	6	41196605	41196605	+	Missense_Mutation	SNP	T	T	C	rs9369265	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	135	83	0	0.992647	0	T|0.307;C|0.693	0.693	strong	TREML4,NS,carcinoma,-1,1	TREML4	25	1	NM_198153	exon2	c.T217C	p.W73R	AAGCCCTGGACAG	.	PASS	Atlas-SNP
CINP	51550	hgsc.bcm.edu	37	14	102815042	102815042	+	Missense_Mutation	SNP	C	C	T	rs7011	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	78	121	1	0.590909	0.00826446	C|0.795;N|0.000	.	strong	CINP,NS,carcinoma,-1,1	CINP	17	1	NM_001177611	exon5	c.G536A	p.R179H	ACCGTGCGCTTCA	.	scavenged	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	37	8	69009268	69009268	+	Silent	SNP	C	C	T	rs3812458	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	58	74	0	0.542056	0	C|0.740;T|0.260	0.260	strong	.	PREX2	614	.	NM_025170	exon22	c.C2385T	p.F795F	CAAATTCAACACT	.	PASS	Atlas-SNP
HSP90AB1	3326	hgsc.bcm.edu	37	6	44221299	44221299	+	Silent	SNP	C	C	T	rs143048794	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	246	41	146	0	0.166667	0	C|0.863;T|0.137	0.137	strong	HSP90AB1,NS,carcinoma,0,1	HSP90AB1	83	1	NM_007355	exon12	c.C2139T	p.G713G	CGAGGGCGATGAG	.	PASS	Atlas-SNP
UPF2	26019	hgsc.bcm.edu	37	10	12077085	12077085	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	82	170	0	0.482353	0	.	.	none	.	UPF2	111	.	NM_080599	exon2	c.A338G	p.Q113R	TCTTCTTGCTGAC	.	PASS	Atlas-SNP
DPPA3	359787	hgsc.bcm.edu	37	12	7867847	7867847	+	Missense_Mutation	SNP	G	G	C	rs41449345	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	72	203	1	0.433735	0.00492611	G|0.700;C|0.300	0.300	strong	DPPA3,NS,carcinoma,0,1	DPPA3	26	1	NM_199286	exon2	c.G151C	p.E51Q	AGTAGCGAATCTG	.	scavenged	Atlas-SNP
SSH1	54434	hgsc.bcm.edu	37	12	109194652	109194652	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	74	97	0	0.569231	0	.	.	none	SSH1_ENST00000326470,NS,carcinoma,0,2	SSH1	144	2	NM_001161331	exon11	c.G1085C	p.G362A	AATAAGCCAGGAA	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745703	50745703	+	Missense_Mutation	SNP	T	T	G	rs201307392	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	32	174	3	0.146789	0.0172414	.	.	weak	FAM186A_ENST00000327337,caecum,carcinoma,0,2	FAM186A	181	2	NM_001145475	exon4	c.A4912C	p.T1638P	TGAGAGTGATCCC	.	scavenged	Atlas-SNP
ZNF479	90827	hgsc.bcm.edu	37	7	57188718	57188718	+	Missense_Mutation	SNP	T	T	C	rs62464802	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	447	214	435	0	0.478747	0	T|0.680;C|0.320	0.320	strong	.	ZNF479	193	.	NM_033273	exon5	c.A404G	p.Y135C	ACCTCATATTCAC	.	PASS	Atlas-SNP
PCDHGB6	56100	hgsc.bcm.edu	37	5	140788107	140788107	+	Missense_Mutation	SNP	C	C	T	rs201370009	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	115	186	1	0.558252	0.00537634	C|0.994;T|0.006	0.006	strong	PCDHGB6,right_lower_lobe,carcinoma,0,1	PCDHGB6	120	1	NM_032100	exon1	c.C338T	p.P113L	AAAATCCTTTAAA	.	PASS	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	37	5	32087808	32087808	+	Silent	SNP	G	G	C	rs3733720	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	59	137	0	0.36646	0	G|0.891;C|0.109	0.109	strong	.	PDZD2	306	.	NM_178140	exon19	c.G4254C	p.G1418G	AGGGGGGAGTAGA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	286	136	237	0	0.475524	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
MCM10	55388	hgsc.bcm.edu	37	10	13239651	13239651	+	Missense_Mutation	SNP	A	A	G	rs2274110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	40	68	0	0.470588	0	A|0.880;G|0.120	0.120	strong	MCM10,NS,carcinoma,0,1	MCM10	76	1	NM_182751	exon15	c.A2006G	p.K669R	GGGCAAAAGGCCA	.	PASS	Atlas-SNP
OR10H1	26539	hgsc.bcm.edu	37	19	15918500	15918500	+	Silent	SNP	G	G	A	rs61740798	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	267	122	284	0	0.456929	0	G|0.750;A|0.250	0.250	strong	.	OR10H1	59	.	NM_013940	exon1	c.C348T	p.T116T	CATGACGGTGAGC	.	PASS	Atlas-SNP
UBASH3A	53347	hgsc.bcm.edu	37	21	43854985	43854985	+	Silent	SNP	A	A	C	rs17114925	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	44	71	0	0.55	0	A|0.750;C|0.250	0.250	strong	.	UBASH3A	72	.	NM_018961	exon10	c.A1314C	p.P438P	TCTGCCAAGACGG	.	PASS	Atlas-SNP
EHD2	30846	hgsc.bcm.edu	37	19	48244569	48244569	+	Silent	SNP	G	G	A	rs3745758	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	67	45	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
L3MBTL4	91133	hgsc.bcm.edu	37	18	5956238	5956238	+	Missense_Mutation	SNP	C	C	T	rs3737353	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	71	143	0	0.559055	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
PDIA3	2923	hgsc.bcm.edu	37	15	44038899	44038899	+	Silent	SNP	C	C	T	rs2411284	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	75	136	0	1	0	C|0.434;T|0.566	0.566	strong	PDIA3,NS,carcinoma,0,2	PDIA3	40	2	NM_005313	exon1	c.C162T	p.A54A	CTTCGCCCCCTGG	.	PASS	Atlas-SNP
ZGLP1	100125288	hgsc.bcm.edu	37	19	10416154	10416154	+	Silent	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	2	136	0	0.0137931	0	.	.	none	ZGLP1_ENST00000403903,NS,carcinoma,+1,2	ZGLP1	18	2	NM_001103167	exon3	c.C610A	p.R204R	AGCGCCGGGGCTC	.	scavenged	Atlas-SNP
IMMT	10989	hgsc.bcm.edu	37	2	86400824	86400824	+	Missense_Mutation	SNP	G	G	A	rs1050301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	146	172	0	0.993197	0	T|0.038;G|0.593;C|0.070;N|0.001;A|0.299	0.299	strong	IMMT,NS,carcinoma,0,1	IMMT	65	1	NM_006839	exon4	c.C370T	p.P124S	AGGCAGGCTGTTT	.	PASS	Atlas-SNP
FAM218A	152756	hgsc.bcm.edu	37	4	165878335	165878335	+	Missense_Mutation	SNP	A	A	G	rs3733418	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	112	216	0	0.422642	0	A|0.813;G|0.187	0.187	strong	.	.	.	.	NM_153027	exon1	c.A161G	p.H54R	GCCGCCATGGCAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	19	59	0	0.422222	0	G|0.580;C|0.420	0.420	strong	.	PSMB1	12	.	NM_002793	exon1	c.C31G	p.P11A	TGCCAGGAGCCGA	.	PASS	Atlas-SNP
FCRL1	115350	hgsc.bcm.edu	37	1	157768000	157768000	+	Silent	SNP	G	G	C	rs3811024	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	84	132	0	0.466667	0	G|0.747;C|0.253	0.253	strong	.	FCRL1	164	.	NM_001159398	exon8	c.C1065G	p.T355T	GAGGTAGGTGAAC	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97864333	97864333	+	Missense_Mutation	SNP	C	C	A	rs71329611	alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	97	45	0	1	0	AT|1.000;|0.000	.	alt	.	ANKRD36	170	.	NM_001164315	exon44	c.C2693A	p.A898D	CAAGTGCCGAGAA	.	PASS	Atlas-SNP
C17orf74	201243	hgsc.bcm.edu	37	17	7329632	7329632	+	Missense_Mutation	SNP	T	T	G	rs13290	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	30	74	0	0.405405	0	T|0.588;G|0.412	0.412	strong	.	C17orf74	56	.	NM_175734	exon3	c.T322G	p.S108A	TCTTTCTCCTGCC	.	PASS	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	37	11	121038810	121038810	+	Silent	SNP	C	C	T	rs2155369	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	143	286	1	0.483108	0.0034965	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
LAMA5	3911	hgsc.bcm.edu	37	20	60893639	60893639	+	Silent	SNP	G	G	C	rs6089732	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	90	174	0	1	0	G|0.822;C|0.178	0.178	strong	LAMA5,caecum,carcinoma,0,1	LAMA5	268	1	NM_005560	exon53	c.C7110G	p.T2370T	GTCGCGGGTTTGT	.	PASS	Atlas-SNP
ZNF772	400720	hgsc.bcm.edu	37	19	57985460	57985460	+	Missense_Mutation	SNP	T	T	A	rs2074059	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	87	197	0	0.439394	0	T|0.353;A|0.647	0.647	strong	.	ZNF772	42	.	NM_001024596	exon5	c.A652T	p.M218L	TCTCCATTGATTG	.	PASS	Atlas-SNP
USP17L7	392197	hgsc.bcm.edu	37	8	11991449	11991449	+	Missense_Mutation	SNP	G	G	A	rs75826165	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	7	4	17	0	0.571429	0	G|0.762;A|0.238	0.238	strong	.	.	.	.	NM_001256869	exon1	c.C70T	p.R24W	CTAGCCGAGAAGA	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79032562	79032562	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	3	121	0	0.0178571	0	.	.	none	CMYA5_ENST00000446378,lower_third,carcinoma,0,2	CMYA5	643	2	NM_153610	exon2	c.A7974G	p.V2658V	TCTAGTATTAGAA	.	scavenged	Atlas-SNP
CCNJL	79616	hgsc.bcm.edu	37	5	159682580	159682580	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	67	159	0	0.336683	0	.	.	none	.	CCNJL	36	.	NM_024565	exon6	c.G863A	p.S288N	CACGTGCTGAGGT	.	PASS	Atlas-SNP
PIGO	84720	hgsc.bcm.edu	37	9	35092480	35092480	+	Silent	SNP	T	T	G	rs35287398	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	77	145	0	0.516779	0	T|0.990;G|0.010	0.010	strong	.	PIGO	86	.	NM_032634	exon7	c.A1404C	p.A468A	CTGAGATGCCAGC	.	PASS	Atlas-SNP
NLRP11	204801	hgsc.bcm.edu	37	19	56320663	56320663	+	Missense_Mutation	SNP	G	G	A	rs12461110	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	27	62	0	0.415385	0	G|0.761;A|0.239	0.239	strong	NLRP11,NS,carcinoma,0,1	NLRP11	139	1	NM_145007	exon5	c.C1313T	p.P438L	TTGCTCGGCAAAA	.	PASS	Atlas-SNP
KIAA1377	57562	hgsc.bcm.edu	37	11	101832608	101832608	+	Missense_Mutation	SNP	T	T	C	rs11225090	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	67	136	0	0.51938	0	T|0.931;C|0.069	0.069	strong	.	KIAA1377	111	.	NM_020802	exon6	c.T842C	p.I281T	ATACCATTTCCCT	.	PASS	Atlas-SNP
UGT1A9	54600	hgsc.bcm.edu	37	2	234581002	234581002	+	Missense_Mutation	SNP	C	C	G	rs76167146	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	4	123	0	0.0310078	0	C|0.943;G|0.057	0.057	strong	UGT1A9,NS,carcinoma,0,1	UGT1A9	79	1	NM_021027	exon1	c.C422G	p.S141C	AGAGTTCTTTTGA	.	scavenged	Atlas-SNP
MIIP	60672	hgsc.bcm.edu	37	1	12082461	12082461	+	Missense_Mutation	SNP	C	C	T	rs11588712	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	41	147	0	0.344538	0	C|0.911;T|0.089	0.089	strong	MIIP,NS,carcinoma,0,1	MIIP	34	1	NM_021933	exon3	c.C424T	p.P142S	CAGACCCCGAGGT	.	PASS	Atlas-SNP
GRM7	2917	hgsc.bcm.edu	37	3	7494417	7494417	+	Missense_Mutation	SNP	A	A	T	rs2229902	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	42	92	0	0.407767	0	A|0.712;T|0.288	0.288	strong	GRM7,NS,carcinoma,-1,1	GRM7	223	1	NM_000844	exon6	c.A1298T	p.Y433F	CTGACTACCGGGG	.	PASS	Atlas-SNP
TPSG1	25823	hgsc.bcm.edu	37	16	1273490	1273490	+	Missense_Mutation	SNP	C	C	T	rs760357	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	15	11	10	0	0.733333	0	C|0.860;T|0.140	0.140	strong	.	TPSG1	19	.	NM_012467	exon3	c.G178A	p.V60M	CGTGCACCCTCCG	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228451826	228451826	+	Missense_Mutation	SNP	C	C	T	rs453140	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	333	192	310	0	0.576577	0	C|0.696;T|0.304	0.304	strong	.	OBSCN	2142	.	NM_001271223	exon18	c.C5147T	p.A1716V	CCAAGGCGGTGTT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	163	151	0	0.976048	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
SLC28A1	9154	hgsc.bcm.edu	37	15	85448875	85448875	+	Missense_Mutation	SNP	C	C	A	rs8187758	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	75	152	0	0.513699	0	C|0.768;A|0.232	0.232	strong	.	SLC28A1	118	.	NM_004213	exon8	c.C709A	p.Q237K	GGCGAGCAGATCC	.	PASS	Atlas-SNP
ALKBH1	8846	hgsc.bcm.edu	37	14	78140355	78140355	+	Missense_Mutation	SNP	T	T	A	rs6494	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	67	146	0	0.478571	0	T|0.823;A|0.177	0.177	strong	.	ALKBH1	30	.	NM_006020	exon6	c.A970T	p.M324L	CCTCCATAGAACA	.	PASS	Atlas-SNP
PELI3	246330	hgsc.bcm.edu	37	11	66240882	66240882	+	Silent	SNP	T	T	C	rs2277302	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	66	37	56	0	0.560606	0	T|0.739;C|0.261	0.261	strong	.	PELI3	36	.	NM_145065	exon6	c.T627C	p.D209D	CTTCGATGCCTCT	.	PASS	Atlas-SNP
SRMS	6725	hgsc.bcm.edu	37	20	62172219	62172219	+	Silent	SNP	G	G	A	rs6122130	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	27	100	0	0.346154	0	G|0.767;A|0.233	0.233	strong	.	SRMS	48	.	NM_080823	exon8	c.C1419T	p.F473F	CGTGGCGAAGGAG	.	PASS	Atlas-SNP
CWF19L2	143884	hgsc.bcm.edu	37	11	107197640	107197640	+	Missense_Mutation	SNP	T	T	C	rs3758911	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	34	54	0	0.5	0	T|0.725;C|0.275	0.275	strong	.	CWF19L2	135	.	NM_152434	exon18	c.A2681G	p.Y894C	CCTCAATAGTTTT	.	PASS	Atlas-SNP
CTNNAL1	8727	hgsc.bcm.edu	37	9	111727670	111727670	+	Missense_Mutation	SNP	C	C	G	rs7021366	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	40	69	0	0.512821	0	C|0.786;G|0.214	0.214	strong	.	CTNNAL1	51	.	NM_003798	exon11	c.G1579C	p.E527Q	TTCCTTCAAACAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508108	195508108	+	Missense_Mutation	SNP	G	G	A	rs374140595		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	369	82	151	0	0.222222	0	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C10343T	p.S3448L	GATGCTGAGGAAG	.	PASS	Atlas-SNP
CCDC18	343099	hgsc.bcm.edu	37	1	93672688	93672688	+	Silent	SNP	C	C	T	rs2783499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	114	121	0	1	0	C|0.794;T|0.206	0.206	strong	.	CCDC18	93	.	NM_206886	exon9	c.C942T	p.N314N	TAACAACGGAAAA	.	PASS	Atlas-SNP
HECW1	23072	hgsc.bcm.edu	37	7	43484310	43484310	+	Silent	SNP	T	T	C	rs73098706	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	95	100	0	1	0	T|0.710;C|0.290	0.290	strong	.	HECW1	540	.	NM_015052	exon11	c.T1539C	p.S513S	TGTGTCTACCCTG	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56203447	56203447	+	Silent	SNP	A	A	G	rs3809979	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	139	173	0	0.992857	0	A|0.317;G|0.683	0.683	strong	.	ALPK2	487	.	NM_052947	exon5	c.T3972C	p.H1324H	TCTCCAATGTACA	.	PASS	Atlas-SNP
SPNS3	201305	hgsc.bcm.edu	37	17	4351560	4351560	+	Silent	SNP	G	G	A	rs12450838	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	124	122	0	1	0	G|0.750;A|0.250	0.250	strong	.	SPNS3	52	.	NM_182538	exon6	c.G732A	p.R244R	CTTCAGGAGCAGC	.	PASS	Atlas-SNP
C19orf12	83636	hgsc.bcm.edu	37	19	30193721	30193721	+	Silent	SNP	G	G	A	rs10424582	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	89	178	0	0.511494	0	G|0.297;A|0.703	0.703	strong	.	C19orf12	16	.	NM_001031726	exon3	c.C357T	p.T119T	CAGCGCGGTCAGC	.	PASS	Atlas-SNP
ZBED2	79413	hgsc.bcm.edu	37	3	111313031	111313031	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	4	263	0	0.0135135	0	.	.	none	ZBED2,colon,carcinoma,-2,1	ZBED2	22	1	NM_024508	exon2	c.C18T	p.D6D	TTCCTCGTCTTCC	.	scavenged	Atlas-SNP
OR2J2	26707	hgsc.bcm.edu	37	6	29141632	29141632	+	Missense_Mutation	SNP	T	T	C	rs3116855	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	383	215	348	0	0.561358	0	T|0.593;C|0.407	0.407	strong	.	OR2J2	51	.	NM_030905	exon1	c.T220C	p.Y74H	CTCTGCTACACCA	.	PASS	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	37	16	11097155	11097155	+	Silent	SNP	G	G	A	rs45464291	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	57	154	0	0.419118	0	G|0.999;A|0.001	0.001	strong	.	CLEC16A	101	.	NM_015226	exon10	c.G1296A	p.E432E	TGGGGAGAGTGAA	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13864728	13864728	+	Silent	SNP	C	C	A	rs6554827	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	107	135	0	0.59116	0	C|0.626;A|0.374	0.374	strong	DNAH5,NS,carcinoma,0,1	DNAH5	868	1	NM_001369	exon28	c.G4374T	p.R1458R	CAAGGCCCGGGGA	.	PASS	Atlas-SNP
SNF8	11267	hgsc.bcm.edu	37	17	47007963	47007963	+	Silent	SNP	C	C	T	rs2270576	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	18	54	0	0.439024	0	C|0.747;T|0.253	0.253	strong	.	SNF8	15	.	NM_007241	exon8	c.G651A	p.L217L	TTCCTTCAGCAGG	.	PASS	Atlas-SNP
CLIP4	79745	hgsc.bcm.edu	37	2	29383256	29383256	+	Missense_Mutation	SNP	G	G	T	rs3100246	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	55	95	0	0.40146	0	G|0.905;T|0.095	0.095	strong	.	CLIP4	69	.	NM_024692	exon12	c.G1457T	p.R486L	AACTCCGCCTCGG	.	PASS	Atlas-SNP
SZT2	23334	hgsc.bcm.edu	37	1	43906896	43906896	+	Silent	SNP	A	A	G	rs2027130	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	111	97	0	0.991071	0	A|0.698;G|0.302	0.302	strong	.	SZT2	383	.	NM_015284	exon52	c.A7185G	p.E2395E	AACAGAATGTGGG	.	PASS	Atlas-SNP
MYH10	4628	hgsc.bcm.edu	37	17	8416901	8416901	+	Silent	SNP	C	C	T	rs11374	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	54	150	0	0.453782	0	A|0.000;C|0.606;G|0.000;T|0.394	0.394	strong	MYH10,NS,carcinoma,0,1	MYH10	148	1	NM_001256012	exon23	c.G2700A	p.T900T	CACCTTCGTCTGC	.	PASS	Atlas-SNP
PIH1D1	55011	hgsc.bcm.edu	37	19	49954803	49954803	+	Missense_Mutation	SNP	C	C	T	rs2293013	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	58	40	0	1	0	C|0.332;T|0.668	0.668	strong	.	PIH1D1	23	.	NM_017916	exon1	c.G29A	p.G10E	CTTAGCCCCATTC	.	PASS	Atlas-SNP
PCDHGC5	56097	hgsc.bcm.edu	37	5	140870516	140870516	+	Missense_Mutation	SNP	A	A	G	rs2074912	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	35	86	0	0.426829	0	A|0.821;G|0.179	0.179	strong	.	PCDHGC5	199	.	NM_018929	exon1	c.A1709G	p.D570G	GGCCAGACTGGGA	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62191321	62191321	+	Silent	SNP	A	A	G	rs3810477	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	81	81	85	0	1	0	A|0.441;G|0.559	0.559	strong	PRIC285,caecum,carcinoma,0,1	.	.	1	NM_001037335	exon19	c.T7785C	p.N2595N	AGCCACATTCACT	.	PASS	Atlas-SNP
CAPN9	10753	hgsc.bcm.edu	37	1	230916260	230916260	+	Silent	SNP	C	C	T	rs28359687	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	43	72	0	0.511905	0	C|0.878;T|0.122	0.122	strong	.	CAPN9	116	.	NM_006615	exon11	c.C1287T	p.D429D	CAAAGACGAACAC	.	PASS	Atlas-SNP
TDG	6996	hgsc.bcm.edu	37	12	104376700	104376700	+	Missense_Mutation	SNP	A	A	C	rs61937630	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	23	283	0	0.0777027	0	.	.	weak	TDG,extremity,malignant_melanoma,0,1	TDG	43	1	NM_003211	exon5	c.A602C	p.K201T	GCAGCAAAGATCT	.	PASS	Atlas-SNP
COL12A1	1303	hgsc.bcm.edu	37	6	75797302	75797302	+	Missense_Mutation	SNP	C	C	T	rs970547	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	55	98	0	0.5	0	T|0.713;G|0.002	0.713	strong	COL12A1,NS,carcinoma,0,1	COL12A1	385	1	NM_004370	exon65	c.G9172A	p.G3058S	GATAGCCTTGCCC	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	37	1	248737595	248737595	+	Missense_Mutation	SNP	A	A	G	rs79056151	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	689	149	593	1	0.216255	0.00168634	A|0.500;G|0.500	0.500	weak	OR2T34,NS,carcinoma,0,2	OR2T34	72	2	NM_001001821	exon1	c.T464C	p.V155A	CCCAAAACCCAGC	.	scavenged	Atlas-SNP
C12orf43	64897	hgsc.bcm.edu	37	12	121442199	121442199	+	Silent	SNP	T	T	A	rs3751151	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	160	187	0	1	0	T|0.704;A|0.296	0.296	strong	C12orf43,NS,adenoma,0,1	C12orf43	30	1	NM_022895	exon6	c.A546T	p.T182T	CTCCACTGTTCCA	.	PASS	Atlas-SNP
TBX4	9496	hgsc.bcm.edu	37	17	59560685	59560685	+	Silent	SNP	C	C	T	rs2270150	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	55	112	0	0.369128	0	C|0.880;T|0.120	0.120	strong	.	TBX4	69	.	NM_018488	exon8	c.C1446T	p.V482V	TCAGGTCCGAGAG	.	PASS	Atlas-SNP
TEKT1	83659	hgsc.bcm.edu	37	17	6704121	6704121	+	Missense_Mutation	SNP	C	C	T	rs2271233	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	88	171	1	0.453608	0.00584795	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	.	scavenged	Atlas-SNP
IL1A	3552	hgsc.bcm.edu	37	2	113539246	113539246	+	Missense_Mutation	SNP	C	C	T	rs3783531	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306	124	268	0	0.405229	0	C|0.998;T|0.002	0.002	strong	.	IL1A	19	.	NM_000575	exon4	c.G254A	p.R85Q	CTCAACCGTCTCT	.	PASS	Atlas-SNP
MICB	4277	hgsc.bcm.edu	37	6	31473957	31473957	+	Missense_Mutation	SNP	C	C	G	rs3134900	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	72	199	0	0.346154	0	C|0.918;G|0.082	0.082	strong	MICB,NS,neuroblastoma,0,2	MICB	26	2	NM_005931	exon3	c.C363G	p.I121M	TGAGATCCATGAA	.	PASS	Atlas-SNP
CHDH	55349	hgsc.bcm.edu	37	3	53856653	53856653	+	Silent	SNP	C	C	T	rs2241808	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	100	81	0	1	0	C|0.555;T|0.444	0.444	strong	CHDH,colon,carcinoma,-2,1	CHDH	34	1	NM_018397	exon4	c.G720A	p.A240A	ACAGGCCGCGCTC	.	PASS	Atlas-SNP
CHAC1	79094	hgsc.bcm.edu	37	15	41245676	41245676	+	Silent	SNP	G	G	A	rs11557249	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	36	126	0	0.45	0	G|0.742;A|0.258	0.258	strong	CHAC1_ENST00000446533,NS,carcinoma,0,1	CHAC1	25	1	NM_024111	exon1	c.G21A	p.E7E	GCTGGAGCTACCG	.	PASS	Atlas-SNP
CXorf65	158830	hgsc.bcm.edu	37	X	70324157	70324157	+	Silent	SNP	C	C	T	rs1130009	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	74	197	0	0.961039	0	0|0.002;T|0.182	0.182	strong	.	CXorf65	23	.	NM_001025265	exon5	c.G417A	p.A139A	GACACTCGCAGGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	116	115	0	1	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
POLN	353497	hgsc.bcm.edu	37	4	2194946	2194946	+	Missense_Mutation	SNP	C	C	T	rs10011549	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	69	235	0	0.418182	0	C|0.708;T|0.292	0.292	strong	.	POLN	82	.	NM_181808	exon5	c.G1006A	p.G336S	AACTGCCATCATT	.	PASS	Atlas-SNP
FGD5	152273	hgsc.bcm.edu	37	3	14861665	14861665	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	6	115	0	0.0402685	0	.	.	none	.	FGD5	248	.	NM_152536	exon1	c.T1087C	p.S363P	AGCTGTTCTCCTC	.	PASS	Atlas-SNP
TCIRG1	10312	hgsc.bcm.edu	37	11	67810297	67810297	+	Silent	SNP	C	C	T	rs3808973	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	21	40	0	0.6	0	C|0.948;T|0.052	0.052	strong	.	TCIRG1	40	.	NM_006019	exon4	c.C384T	p.H128H	GCTCCACGCCGCC	.	PASS	Atlas-SNP
KLF17	128209	hgsc.bcm.edu	37	1	44595426	44595426	+	Silent	SNP	G	G	A	rs2429050	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	26	64	0	0.509804	0	G|0.699;A|0.301	0.301	strong	.	KLF17	92	.	NM_173484	exon2	c.G483A	p.S161S	AGTCTCGGCTTCC	.	PASS	Atlas-SNP
IL22RA1	58985	hgsc.bcm.edu	37	1	24465113	24465113	+	Silent	SNP	C	C	T	rs10903022	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	154	160	0	0.987179	0	C|0.607;N|0.000	.	strong	.	IL22RA1	62	.	NM_021258	exon2	c.G135A	p.P45P	GCCCTCCGGCCCG	.	PASS	Atlas-SNP
MASP1	5648	hgsc.bcm.edu	37	3	186959295	186959295	+	Missense_Mutation	SNP	C	C	T	rs28945068	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	71	136	0	0.489655	0	C|0.989;T|0.011	0.011	strong	MASP1_ENST00000296280,NS,carcinoma,+1,4	MASP1	240	4	NM_139125	exon10	c.G1277A	p.G426E	CTTCTCCCCAATA	.	PASS	Atlas-SNP
ANKK1	255239	hgsc.bcm.edu	37	11	113270015	113270015	+	Missense_Mutation	SNP	G	G	C	rs4938016	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	35	91	0	0.416667	0	C|0.560;G|0.440	0.560	strong	ANKK1,NS,carcinoma,0,1	ANKK1	83	1	NM_178510	exon8	c.G1324C	p.G442R	GATGACGGCACTG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506983	195506983	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	28	58	0	0.176101	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,+1,2	MUC4	1505	2	NM_018406	exon2	c.C11468T	p.T3823I	AGAGGGGTGGTGT	.	scavenged	Atlas-SNP
C12orf71	728858	hgsc.bcm.edu	37	12	27234200	27234200	+	Silent	SNP	T	T	C	rs708165	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	59	56	0	1	0	T|0.739;C|0.261	0.261	strong	.	C12orf71	20	.	NM_001080406	exon2	c.A717G	p.K239K	GGGACTTTTGGTG	.	PASS	Atlas-SNP
ZNF532	55205	hgsc.bcm.edu	37	18	56620910	56620910	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	139	292	0	0.549407	0	.	.	none	.	ZNF532	108	.	NM_018181	exon8	c.C3029T	p.P1010L	CATCTCCTGTGAA	.	PASS	Atlas-SNP
PGM1	5236	hgsc.bcm.edu	37	1	64114301	64114301	+	Missense_Mutation	SNP	T	T	C	rs11208257	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	52	79	0	0.722222	0	T|0.809;C|0.191	0.191	strong	PGM1_ENST00000371083,NS,carcinoma,0,2	PGM1	75	2	NM_001172818	exon8	c.T1312C	p.Y438H	CAAAAGTATGGCC	.	PASS	Atlas-SNP
SIGLEC12	89858	hgsc.bcm.edu	37	19	52000151	52000151	+	Missense_Mutation	SNP	T	T	A	rs61743147	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	182	76	156	0	0.417582	0	T|0.958;A|0.042	0.042	strong	.	SIGLEC12	243	.	NM_053003	exon7	c.A1582T	p.R528W	AGCCCCTGACAGC	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2836084	2836084	+	Silent	SNP	C	C	G	rs73632973	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	53	111	0	0.473214	0	C|0.928;G|0.072	0.072	strong	.	ARSD	47	.	NM_001669	exon5	c.G624C	p.A208A	CCCCAGCGCCAGG	.	PASS	Atlas-SNP
SPAG16	79582	hgsc.bcm.edu	37	2	214160817	214160817	+	Missense_Mutation	SNP	G	G	A	rs61752198	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	87	158	0	0.540373	0	G|0.985;A|0.015	0.015	strong	.	SPAG16	134	.	NM_024532	exon2	c.G166A	p.D56N	GAAGATGACTATG	.	PASS	Atlas-SNP
EMILIN2	84034	hgsc.bcm.edu	37	18	2885118	2885118	+	Silent	SNP	C	C	T	rs592120	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	37	59	0	1	0	C|0.763;T|0.237	0.237	strong	.	EMILIN2	97	.	NM_032048	exon3	c.C414T	p.N138N	TCGAAACAGCTTG	.	PASS	Atlas-SNP
AGGF1	55109	hgsc.bcm.edu	37	5	76332463	76332463	+	Missense_Mutation	SNP	C	C	A	rs78273685	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	7	232	2	0.0236486	0.00862069	A|0.001;C|0.999	0.001	weak	AGGF1,NS,carcinoma,0,1	AGGF1	71	1	NM_018046	exon4	c.C599A	p.A200E	CAGAAGCGGCTGT	.	scavenged	Atlas-SNP
ZNF701	55762	hgsc.bcm.edu	37	19	53085813	53085813	+	Silent	SNP	T	T	C	rs3745101	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	68	186	0	0.425	0	T|0.704;C|0.296	0.296	strong	.	ZNF701	44	.	NM_001172655	exon5	c.T699C	p.A233A	GAAGGCTATCAAC	.	PASS	Atlas-SNP
DCUN1D2	55208	hgsc.bcm.edu	37	13	114112389	114112389	+	Silent	SNP	T	T	C	rs41286638	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	49	63	0	0.538462	0	T|0.976;C|0.024	0.024	strong	DCUN1D2,NS,carcinoma,0,1	DCUN1D2	17	1	NM_001014283	exon7	c.A735G	p.E245E	TGCATATTCTACA	.	PASS	Atlas-SNP
SAGE1	55511	hgsc.bcm.edu	37	X	134986700	134986700	+	Silent	SNP	T	T	C	rs12014884	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	218	217	463	0	0.995413	0	T|0.806;C|0.194	0.194	strong	.	SAGE1	160	.	NM_018666	exon4	c.T285C	p.N95N	TGATAATGTCTTG	.	PASS	Atlas-SNP
TUBGCP6	85378	hgsc.bcm.edu	37	22	50682865	50682865	+	Silent	SNP	G	G	A	rs5771270	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	23	85	1	0.433962	0.0117647	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	.	scavenged	Atlas-SNP
SARDH	1757	hgsc.bcm.edu	37	9	136536679	136536679	+	Silent	SNP	G	G	A	rs129932	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	254	130	218	0	0.511811	0	G|0.464;A|0.536	0.536	strong	.	SARDH	112	.	NM_007101	exon18	c.C2304T	p.I768I	GGAGTCGATGGCG	.	PASS	Atlas-SNP
PZP	5858	hgsc.bcm.edu	37	12	9316773	9316773	+	Missense_Mutation	SNP	T	T	C	rs3213831	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	86	189	0	0.521212	0	T|0.582;C|0.418	0.418	strong	.	PZP	422	.	NM_002864	exon20	c.A2570G	p.N857S	CTCTCATTTCCAC	.	PASS	Atlas-SNP
CYP1B1	1545	hgsc.bcm.edu	37	2	38298139	38298139	+	Missense_Mutation	SNP	T	T	C	rs1800440	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	71	172	0	0.47651	0	T|0.882;C|0.118	0.118	strong	CYP1B1,colon,carcinoma,0,3	CYP1B1	39	3	NM_000104	exon3	c.A1358G	p.N453S	TCCTTGTTGATGA	.	PASS	Atlas-SNP
PRADC1	84279	hgsc.bcm.edu	37	2	73455600	73455600	+	Silent	SNP	C	C	T	rs11559241	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	73	184	0	0.437126	0	C|0.922;T|0.078	0.078	strong	.	PRADC1	15	.	NM_032319	exon5	c.G549A	p.P183P	CCAGGGCGGTTGC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	83	168	0	0.542484	0	A|0.710;G|0.290	0.290	strong	.	UGT1A6	63	.	NM_001072	exon1	c.A541G	p.T181A	GAGCATACATTCA	.	PASS	Atlas-SNP
B3GALT5	10317	hgsc.bcm.edu	37	21	41032740	41032740	+	Missense_Mutation	SNP	T	T	C	rs3746887	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	101	91	0	1	0	T|0.335;C|0.665	0.665	strong	B3GALT5,NS,carcinoma,-1,2	B3GALT5	40	2	NM_033170	exon3	c.T254C	p.M85T	AGAGGATGGTGAA	.	PASS	Atlas-SNP
FAM170B	170370	hgsc.bcm.edu	37	10	50341954	50341954	+	Missense_Mutation	SNP	A	A	G	rs34110351	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	217	216	210	0	0.995392	0	A|0.759;G|0.241	0.241	strong	.	FAM170B	20	.	NM_001164484	exon1	c.T10C	p.Y4H	TGAAGTAGCATTT	.	PASS	Atlas-SNP
NUDT8	254552	hgsc.bcm.edu	37	11	67395714	67395714	+	Silent	SNP	C	C	T	rs7124513	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	18	47	0	0.529412	0	C|0.746;T|0.254	0.254	strong	.	NUDT8	12	.	NM_001243750	exon4	c.G414A	p.E138E	AAACACCTCATCT	.	PASS	Atlas-SNP
KIAA1429	25962	hgsc.bcm.edu	37	8	95541371	95541371	+	Silent	SNP	T	T	A	rs957446	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	110	247	1	0.460251	0.00404858	A|0.628;T|0.372	0.628	strong	KIAA1429_ENST00000421249,NS,carcinoma,-1,4	KIAA1429	176	4	NM_015496	exon7	c.A807T	p.R269R	TACTGTTCGTCGA	.	PASS	Atlas-SNP
UBE3C	9690	hgsc.bcm.edu	37	7	156974354	156974354	+	Silent	SNP	G	G	A	rs17646047	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	45	115	0	0.405405	0	G|0.953;A|0.047	0.047	strong	.	UBE3C	124	.	NM_014671	exon7	c.G759A	p.P253P	CTGTCCGGAAGGT	.	PASS	Atlas-SNP
CTSH	1512	hgsc.bcm.edu	37	15	79237293	79237293	+	Missense_Mutation	SNP	C	C	T	rs2289702	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	20	64	0	0.540541	0	C|0.917;T|0.083	0.083	strong	.	CTSH	23	.	NM_004390	exon1	c.G31A	p.G11R	AGGCCCCGGCGCA	.	PASS	Atlas-SNP
RAI1	10743	hgsc.bcm.edu	37	17	17696755	17696755	+	Missense_Mutation	SNP	C	C	A	rs11649804	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	58	107	0	0.58	0	C|0.584;A|0.415	0.415	strong	RAI1,NS,carcinoma,0,1	RAI1	121	1	NM_030665	exon3	c.C493A	p.P165T	CAGGTGCCCTTTC	.	PASS	Atlas-SNP
PLEKHG4	25894	hgsc.bcm.edu	37	16	67318630	67318630	+	Silent	SNP	T	T	G	rs61738731	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	104	250	1	0.435146	0.004	T|0.970;G|0.030	0.030	strong	.	PLEKHG4	94	.	NM_001129728	exon13	c.T1707G	p.A569A	GTGGGCTGAGGAG	.	PASS	Atlas-SNP
BTN3A2	11118	hgsc.bcm.edu	37	6	26368279	26368279	+	Splice_Site	SNP	G	G	A	rs72841509	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	79	104	0	0.537415	0	G|0.927;A|0.073	0.073	strong	.	BTN3A2	44	.	.	.	.	.	GCAGAGGTAAGAT	.	PASS	Atlas-SNP
PCSK4	54760	hgsc.bcm.edu	37	19	1487981	1487981	+	Silent	SNP	C	C	T	rs151115553	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	26	72	0	0.481481	0	C|0.996;T|0.004	0.004	strong	.	PCSK4	44	.	NM_017573	exon4	c.G498A	p.P166P	GAGGTCCGGGTGG	.	PASS	Atlas-SNP
CPPED1	55313	hgsc.bcm.edu	37	16	12758966	12758966	+	Missense_Mutation	SNP	T	T	C	rs1713480	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	76	80	0	0.974359	0	T|0.221;C|0.779	0.779	strong	.	CPPED1	41	.	NM_018340	exon4	c.A722G	p.K241R	ACGACTTTGACAC	.	PASS	Atlas-SNP
POLR2B	5431	hgsc.bcm.edu	37	4	57876955	57876955	+	Silent	SNP	G	G	A	rs1718878	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	241	236	0	0.995868	0	G|0.635;A|0.365	0.365	strong	.	POLR2B	108	.	NM_000938	exon12	c.G1590A	p.A530A	GATGGCGTATATT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506555	195506555	+	Missense_Mutation	SNP	C	C	T	rs368695884		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	12	61	0	0.210526	0	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.G11896A	p.A3966T	AGGTGGCGTGACC	.	scavenged	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73537978	73537978	+	Silent	SNP	C	C	T	rs10762480	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	76	140	0	0.513514	0	C|0.824;T|0.176	0.176	strong	CDH23,NS,carcinoma,0,1	CDH23	365	1	NM_022124	exon38	c.C5100T	p.Y1700Y	GGACTACGAGATC	.	PASS	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	37	20	36859711	36859711	+	Silent	SNP	G	G	A	rs1205418	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	38	48	0	0.633333	0	G|0.703;A|0.297	0.297	strong	.	KIAA1755	145	.	NM_001029864	exon5	c.C1764T	p.A588A	CCGCCCGGCCCTG	.	PASS	Atlas-SNP
PIEZO1	9780	hgsc.bcm.edu	37	16	88788060	88788060	+	Silent	SNP	G	G	A	rs72811487	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	25	58	0	0.396825	0	G|0.985;A|0.015	0.015	strong	.	PIEZO1	79	.	NM_001142864	exon38	c.C5289T	p.Y1763Y	GTTCTCGTAGCGC	.	PASS	Atlas-SNP
CTR9	9646	hgsc.bcm.edu	37	11	10786175	10786175	+	Silent	SNP	C	C	T	rs7118399	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	57	118	0	0.471074	0	C|0.772;T|0.228	0.228	strong	CTR9,NS,carcinoma,0,1	CTR9	94	1	NM_014633	exon12	c.C1494T	p.T498T	CGTTACCACGTCA	.	PASS	Atlas-SNP
POM121L2	94026	hgsc.bcm.edu	37	6	27279805	27279805	+	Missense_Mutation	SNP	G	G	T	rs61736098	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	68	102	0	0.535433	0	G|0.979;T|0.021	0.021	strong	.	POM121L2	61	.	NM_033482	exon1	c.C145A	p.P49T	GGGCAGGGTGGGC	.	PASS	Atlas-SNP
KRT32	3882	hgsc.bcm.edu	37	17	39619115	39619115	+	Missense_Mutation	SNP	G	G	A	rs2071563	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	169	169	122	0	1	0	G|0.611;A|0.389	0.389	strong	.	KRT32	57	.	NM_002278	exon6	c.C1184T	p.T395M	CGGTACGTGTTGA	.	PASS	Atlas-SNP
OR4D6	219983	hgsc.bcm.edu	37	11	59225221	59225221	+	Missense_Mutation	SNP	T	T	C	rs1453541	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	91	178	0	0.452736	0	T|0.689;C|0.311	0.311	strong	OR4D6,NS,carcinoma,-1,2	OR4D6	65	2	NM_001004708	exon1	c.T788C	p.M263T	CCTTCATGACGCT	.	PASS	Atlas-SNP
NEK5	341676	hgsc.bcm.edu	37	13	52667228	52667228	+	Silent	SNP	G	G	A	rs55715265	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	167	60	160	0	0.359281	0	G|0.967;A|0.033	0.033	strong	.	NEK5	189	.	NM_199289	exon13	c.C1170T	p.Y390Y	CTGACCGTAATCC	.	PASS	Atlas-SNP
OR6T1	219874	hgsc.bcm.edu	37	11	123813940	123813940	+	Silent	SNP	G	G	C	rs7130003	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	64	152	0	0.496124	0	G|0.738;C|0.262	0.262	strong	.	OR6T1	85	.	NM_001005187	exon1	c.C606G	p.L202L	CGTAGAGAGCATG	.	PASS	Atlas-SNP
KATNAL2	83473	hgsc.bcm.edu	37	18	44595647	44595647	+	Silent	SNP	C	C	T	rs56297904	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	67	253	0	0.352632	0	C|0.988;T|0.012	0.012	strong	.	KATNAL2	64	.	NM_031303	exon9	c.C666T	p.G222G	GTACGGCCCTCCA	.	PASS	Atlas-SNP
FAM169A	26049	hgsc.bcm.edu	37	5	74109840	74109840	+	Silent	SNP	G	G	A	rs76561443	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	49	81	0	0.485149	0	G|0.968;A|0.032	0.032	strong	.	FAM169A	61	.	NM_015566	exon6	c.C495T	p.S165S	ACATATGCTTCCT	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76482432	76482432	+	Silent	SNP	A	A	G	rs691151	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	129	129	129	0	1	0	A|0.343;G|0.657	0.657	strong	.	DNAH17	347	.	NM_173628	exon45	c.T6975C	p.I2325I	GTACAGAATCGTT	.	PASS	Atlas-SNP
SMO	6608	hgsc.bcm.edu	37	7	128846328	128846328	+	Silent	SNP	G	G	C	rs2228617	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	146	133	0	0.993197	0	G|0.216;C|0.784	0.784	strong	.	SMO	145	.	NM_005631	exon6	c.G1164C	p.G388G	GAGTGGGATTTGT	.	PASS	Atlas-SNP
LCE1E	353135	hgsc.bcm.edu	37	1	152759950	152759950	+	Missense_Mutation	SNP	A	A	G	rs11205106	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	254	320	0	0.984496	0	A|0.454;G|0.546	0.546	strong	.	LCE1E	26	.	NM_178353	exon2	c.A175G	p.S59G	GGGGGCAGCTGTG	.	PASS	Atlas-SNP
GALR3	8484	hgsc.bcm.edu	37	22	38219570	38219570	+	Missense_Mutation	SNP	C	C	G	rs78650836	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	73	162	0	0.474026	0	C|0.996;G|0.004	0.004	strong	.	GALR3	12	.	NM_003614	exon1	c.C157G	p.P53A	CAGGAGCCTGGCA	.	PASS	Atlas-SNP
PKN1	5585	hgsc.bcm.edu	37	19	14581063	14581063	+	Silent	SNP	A	A	G	rs1042728	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	66	133	0	0.5	0	A|0.837;G|0.163	0.163	strong	.	PKN1	99	.	NM_213560	exon19	c.A2400G	p.R800R	CACGCGAGCTGTG	.	PASS	Atlas-SNP
SPRR1B	6699	hgsc.bcm.edu	37	1	153004848	153004848	+	Silent	SNP	T	T	C	rs3795381	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	339	195	242	0	0.575221	0	T|0.497;C|0.503	0.503	strong	.	SPRR1B	18	.	NM_003125	exon2	c.T27C	p.P9P	GCAGCCTTGCACC	.	PASS	Atlas-SNP
MYO16	23026	hgsc.bcm.edu	37	13	109518578	109518578	+	Silent	SNP	T	T	C	rs9559428	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	127	205	0	0.503968	0	T|0.907;C|0.093	0.093	strong	.	MYO16	285	.	NM_001198950	exon12	c.T1413C	p.I471I	TCCAATTTATTCT	.	PASS	Atlas-SNP
ALDH3B2	222	hgsc.bcm.edu	37	11	67433869	67433869	+	Missense_Mutation	SNP	C	C	T	rs1551888	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	153	126	0	1	0	C|0.139;T|0.861	0.861	strong	.	ALDH3B2	46	.	NM_001031615	exon5	c.G155A	p.S52N	ACGCAACTCCCTG	.	PASS	Atlas-SNP
CD109	135228	hgsc.bcm.edu	37	6	74521947	74521947	+	Missense_Mutation	SNP	C	C	T	rs2917862	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	210	210	144	0	1	0	C|0.593;T|0.407	0.407	strong	.	CD109	170	.	NM_133493	exon29	c.C3722T	p.T1241M	AGCCAACGGCAGT	.	PASS	Atlas-SNP
KRTAP12-2	353323	hgsc.bcm.edu	37	21	46086407	46086407	+	Missense_Mutation	SNP	C	C	T	rs12481809	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	386	185	368	0	0.479275	0	C|0.844;T|0.156	0.156	strong	.	KRTAP12-2	10	.	NM_181684	exon1	c.G397A	p.V133I	AGAGGACGCTGGT	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	37	19	38990593	38990593	+	Silent	SNP	C	C	T	rs12973632	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	62	152	0	0.433566	0	C|0.969;T|0.031	0.031	strong	RYR1,NS,carcinoma,+2,1	RYR1	708	1	NM_001042723	exon45	c.C7260T	p.H2420H	GGGACACGCCATC	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130872529	130872529	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1467	3	1370	2	0.00204499	0.00145985	.	.	none	POTEF,NS,carcinoma,0,2	POTEF	140	2	NM_001099771	exon5	c.C735T	p.Y245Y	GATAGCGTAGTGC	.	scavenged	Atlas-SNP
MRPL20	55052	hgsc.bcm.edu	37	1	1342394	1342394	+	Silent	SNP	G	G	A	rs11548045	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	26	56	0	0.433333	0	G|0.978;A|0.022	0.022	strong	.	MRPL20	13	.	NM_017971	exon2	c.C93T	p.F31F	TCCCCGGAAGTGC	.	PASS	Atlas-SNP
GOLGA8A	23015	hgsc.bcm.edu	37	15	34673722	34673722	+	Missense_Mutation	SNP	C	C	T	rs76522922	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	604	211	780	2	0.349338	0.0025641	C|0.511;T|0.489	0.489	strong	.	GOLGA8A	8	.	NM_181077	exon16	c.G1702A	p.V568I	GCACGACTGGCTG	.	PASS	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	37	17	29187497	29187497	+	Silent	SNP	A	A	G	rs9896095	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	184	177	0	1	0	A|0.862;G|0.138	0.138	strong	.	ATAD5	150	.	NM_024857	exon10	c.A3003G	p.V1001V	ACTCGTAGAAGCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195511364	195511364	+	Missense_Mutation	SNP	T	T	A	rs75187745	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	393	33	182	0	0.0839695	0	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	.	PASS	Atlas-SNP
DOCK9	23348	hgsc.bcm.edu	37	13	99575568	99575568	+	Silent	SNP	G	G	A	rs12428661	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	33	102	0	0.434211	0	G|0.826;A|0.174	0.174	strong	DOCK9_ENST00000448493,caecum,carcinoma,0,3	DOCK9	311	3	NM_001130049	exon5	c.C477T	p.V159V	TTTGTCGACCTCC	.	PASS	Atlas-SNP
PELP1	27043	hgsc.bcm.edu	37	17	4576216	4576216	+	Silent	SNP	G	G	A	rs147763003	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	41	146	0	0.280822	0	G|0.995;A|0.005	0.005	strong	.	PELP1	102	.	NM_014389	exon16	c.C2070T	p.P690P	TGCTGAGGGCATG	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152675854	152675854	+	Silent	SNP	A	A	G	rs9397102	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	120	295	1	0.446097	0.00338983	A|0.411;G|0.589	0.589	strong	.	SYNE1	3227	.	NM_182961	exon67	c.T10866C	p.S3622S	CCTGGGACTAACT	.	PASS	Atlas-SNP
RARS	5917	hgsc.bcm.edu	37	5	167919825	167919825	+	Silent	SNP	G	G	A	rs2305728	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	414	413	412	0	0.997585	0	G|0.881;A|0.119	0.119	strong	.	RARS	58	.	NM_002887	exon3	c.G342A	p.Q114Q	CTATCAGTGTAAT	.	PASS	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	37	5	169127097	169127097	+	Silent	SNP	C	C	A	rs2112703	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	144	132	1	1	0.00757576	C|0.852;A|0.148	0.148	strong	.	DOCK2	389	.	NM_004946	exon13	c.C1212A	p.T404T	CAGGACCACCGTG	.	PASS	Atlas-SNP
RNF168	165918	hgsc.bcm.edu	37	3	196199204	196199204	+	Missense_Mutation	SNP	G	G	T	rs3796129	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	149	209	0	1	0	G|0.546;T|0.454	0.454	strong	.	RNF168	49	.	NM_152617	exon6	c.C1202A	p.P401Q	AAGCATGGATCCT	.	PASS	Atlas-SNP
TFE3	7030	hgsc.bcm.edu	37	X	48888074	48888074	+	Silent	SNP	T	T	C	rs3027472	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	142	299	1	0.993007	0.00334448	T|0.674;C|0.326	0.326	strong	.	TFE3	93	.	NM_006521	exon10	c.A1323G	p.V441V	GGGAGGTACTGGC	.	PASS	Atlas-SNP
GGT6	124975	hgsc.bcm.edu	37	17	4463699	4463699	+	Missense_Mutation	SNP	G	G	A	rs7216284	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	62	34	59	0	0.548387	0	G|0.813;A|0.187	0.187	strong	.	GGT6	22	.	NM_001122890	exon1	c.C118T	p.R40W	GCCTCCGGGGGTT	.	PASS	Atlas-SNP
LRRC55	219527	hgsc.bcm.edu	37	11	56949691	56949691	+	Missense_Mutation	SNP	G	G	A	rs12364102	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	70	170	0	0.48951	0	G|0.920;A|0.080	0.080	strong	.	LRRC55	52	.	NM_001005210	exon1	c.G324A	p.M108I	GCCAATGGACACC	.	PASS	Atlas-SNP
LY6G5B	58496	hgsc.bcm.edu	37	6	31639757	31639757	+	Missense_Mutation	SNP	G	G	A	rs805267	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	83	145	0	0.532051	0	G|0.905;A|0.095	0.095	strong	.	LY6G5B	8	.	NM_021221	exon3	c.G304A	p.D102N	CAGTACGATTATT	.	PASS	Atlas-SNP
SYCE1	93426	hgsc.bcm.edu	37	10	135368906	135368906	+	Silent	SNP	G	G	C	rs138177213	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	74	150	0	0.477419	0	G|0.997;C|0.003	0.003	strong	.	SYCE1	81	.	NM_001143763	exon12	c.C867G	p.V289V	GGCAGGGACTTGC	.	PASS	Atlas-SNP
LAMP3	27074	hgsc.bcm.edu	37	3	182853670	182853670	+	Missense_Mutation	SNP	T	T	C	rs482912	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	120	122	0	1	0	T|0.458;C|0.542	0.542	strong	.	LAMP3	48	.	NM_014398	exon5	c.A952G	p.I318V	GGTAAATTGTCTC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	103	117	1	1	0.00854701	G|0.321;A|0.679	0.679	strong	.	.	.	.	NM_001146197	exon4	c.C18223T	p.R6075C	CTTTACGTTTGGG	.	PASS	Atlas-SNP
HEATR2	54919	hgsc.bcm.edu	37	7	810219	810219	+	Missense_Mutation	SNP	T	T	C	rs4720951	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	46	100	0	0.433962	0	T|0.578;C|0.422	0.422	strong	HEATR2,colon,carcinoma,-1,1	HEATR2	62	1	NM_017802	exon9	c.T1895C	p.V632A	CCACCGTGCTGCT	.	PASS	Atlas-SNP
SEC23B	10483	hgsc.bcm.edu	37	20	18513350	18513350	+	Missense_Mutation	SNP	G	G	A	rs41309927	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	90	183	0	0.520231	0	G|0.962;A|0.038	0.038	strong	.	SEC23B	70	.	NM_032985	exon11	c.G1276A	p.V426I	CCATGCGTATCTC	.	PASS	Atlas-SNP
OR13C2	392376	hgsc.bcm.edu	37	9	107367431	107367431	+	Missense_Mutation	SNP	A	A	T	rs61735925	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	378	130	449	0	0.343915	0	A|0.158;T|0.842	0.842	strong	.	OR13C2	46	.	NM_001004481	exon1	c.T478A	p.S160T	ACACTGATTGTAC	.	PASS	Atlas-SNP
MYLK3	91807	hgsc.bcm.edu	37	16	46773999	46773999	+	Missense_Mutation	SNP	C	C	A	rs28407821	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	77	153	0	0.503268	0	C|0.544;A|0.456	0.456	strong	MYLK3,NS,carcinoma,0,2	MYLK3	82	2	NM_182493	exon2	c.G538T	p.V180L	ACTGCACCCCACT	.	PASS	Atlas-SNP
CHST10	9486	hgsc.bcm.edu	37	2	101010082	101010082	+	Silent	SNP	G	G	C	rs3748930	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	42	88	0	0.461538	0	G|0.426;C|0.574	0.574	strong	.	CHST10	42	.	NM_004854	exon7	c.C696G	p.T232T	CCCCCGGGTCTCT	.	PASS	Atlas-SNP
ELN	2006	hgsc.bcm.edu	37	7	73474825	73474825	+	Missense_Mutation	SNP	G	G	C	rs17855988	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	643	279	628	0	0.433904	0	G|0.931;C|0.069	0.069	strong	.	ELN	81	.	NM_001081754	exon25	c.G1756C	p.G586R	GGCTTCGGGGCAG	.	PASS	Atlas-SNP
CEL	1056	hgsc.bcm.edu	37	9	135946483	135946483	+	Missense_Mutation	SNP	C	C	T	rs200231984	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	49	73	0	0.475728	0	C|0.999;T|0.001	0.001	weak	.	CEL	71	.	NM_001807	exon11	c.C1603T	p.R535W	ATGAAGCGGAGCC	.	PASS	Atlas-SNP
HJURP	55355	hgsc.bcm.edu	37	2	234750542	234750542	+	Missense_Mutation	SNP	G	G	C	rs3732215	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	204	182	1	1	0.00549451	G|0.593;C|0.407	0.407	strong	HJURP,NS,haematopoietic_neoplasm,+1,4	HJURP	72	4	NM_018410	exon8	c.C884G	p.S295C	CTCCTGGAGTTCC	.	PASS	Atlas-SNP
IL11	3589	hgsc.bcm.edu	37	19	55879872	55879872	+	Silent	SNP	C	C	T	rs1126757	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	86	154	0	0.577181	0	C|0.636;T|0.364	0.364	strong	.	IL11	16	.	NM_000641	exon3	c.G246A	p.A82A	TGCCCCCGCACTC	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745827	50745827	+	Silent	SNP	C	C	A	rs12317332	bycluster;by2hit2allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	258	38	202	0	0.147287	0	.	.	weak	FAM186A_ENST00000327337,caecum,carcinoma,0,1	FAM186A	181	1	NM_001145475	exon4	c.G4788T	p.A1596A	TTCCTGCGCCTGC	.	PASS	Atlas-SNP
ZNF211	10520	hgsc.bcm.edu	37	19	58152817	58152817	+	Silent	SNP	G	G	C	rs11880050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	37	81	0	0.474359	0	G|0.804;C|0.196	0.196	strong	.	ZNF211	78	.	NM_001265597	exon5	c.G1158C	p.S386S	GAAATCGTTTAGT	.	PASS	Atlas-SNP
OR11H4	390442	hgsc.bcm.edu	37	14	20711852	20711852	+	Missense_Mutation	SNP	C	C	G	rs17277270	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	46	102	0	0.403509	0	C|0.896;G|0.104	0.104	strong	.	OR11H4	63	.	NM_001004479	exon1	c.C902G	p.T301S	TCTATACTCTTCG	.	PASS	Atlas-SNP
IDO2	169355	hgsc.bcm.edu	37	8	39862881	39862881	+	Missense_Mutation	SNP	C	C	T	rs10109853	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	232	100	223	0	0.431034	0	C|0.600;T|0.400	0.400	strong	.	IDO2	78	.	NM_194294	exon9	c.C742T	p.R248W	GGCATCCGGATCT	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47851578	47851578	+	Missense_Mutation	SNP	G	G	A	rs140456142	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	56	133	0	0.474576	0	G|0.999;A|0.001	0.001	strong	.	PKD1L1	328	.	NM_138295	exon50	c.C7418T	p.S2473F	TGCACAGACACAG	.	PASS	Atlas-SNP
ZNF248	57209	hgsc.bcm.edu	37	10	38120642	38120642	+	Silent	SNP	C	C	T	rs1208731	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	50	111	0	0.393701	0	C|0.936;T|0.064	0.064	strong	.	ZNF248	61	.	NM_001267597	exon6	c.G1641A	p.P547P	CTCATACGGCTTC	.	PASS	Atlas-SNP
FBXO6	26270	hgsc.bcm.edu	37	1	11728894	11728894	+	Missense_Mutation	SNP	G	G	A	rs56331446		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	85	204	0	0.505952	0	.	.	weak	FBXO6,NS,carcinoma,0,1	FBXO6	17	1	NM_018438	exon2	c.G179A	p.R60Q	GCCTGCGAGAGGG	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228524961	228524961	+	Silent	SNP	C	C	A	rs3795808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	92	174	0	0.508287	0	A|0.286;C|0.714;G|0.000	0.286	strong	.	OBSCN	2142	.	NM_001271223	exon77	c.C19548A	p.P6516P	GGTGCCCGGAGGT	.	PASS	Atlas-SNP
ATXN1	6310	hgsc.bcm.edu	37	6	16327906	16327906	+	Missense_Mutation	SNP	C	C	A	rs376233432		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	4	78	1	0.0380952	0.0128205	.	.	weak	ATXN1,colon,carcinoma,0,3	ATXN1	117	3	NM_001128164	exon7	c.G636T	p.Q212H	CTGCTGCTGATGC	.	scavenged	Atlas-SNP
MIDN	90007	hgsc.bcm.edu	37	19	1256998	1256998	+	Silent	SNP	C	C	T	rs9823	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	16	23	0	1	0	C|0.713;T|0.287	0.287	strong	MIDN,NS,carcinoma,0,2	MIDN	34	2	NM_177401	exon8	c.C1134T	p.D378D	AGGGGACCGGCTT	.	PASS	Atlas-SNP
ZNF573	126231	hgsc.bcm.edu	37	19	38230398	38230398	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	4	159	0	0.0246914	0	.	.	none	ZNF573,NS,carcinoma,-2,1	ZNF573	63	1	NM_001172690	exon5	c.G993A	p.E331E	TTTACACTCATAT	.	scavenged	Atlas-SNP
C2orf70	339778	hgsc.bcm.edu	37	2	26798893	26798893	+	Missense_Mutation	SNP	A	A	T	rs13002673	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	117	132	0	0.991525	0	A|0.675;T|0.325	0.325	strong	.	C2orf70	26	.	NM_001105519	exon2	c.A198T	p.Q66H	CAGCCAAGGCGGC	.	PASS	Atlas-SNP
POTED	317754	hgsc.bcm.edu	37	21	15011886	15011886	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	374	4	76	0	0.0106952	0	.	.	none	POTED,NS,carcinoma,0,1	POTED	57	1	NM_174981	exon10	c.G1460A	p.G487E	ACACTGGAATATC	.	scavenged	Atlas-SNP
FOXE3	2301	hgsc.bcm.edu	37	1	47882497	47882497	+	Silent	SNP	C	C	T	rs34082359	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	8	8	25	0	1	0	C|0.710;T|0.290	0.290	strong	.	FOXE3	8	.	NM_012186	exon1	c.C510T	p.A170A	GCGCGCCGAGCTG	.	PASS	Atlas-SNP
ZNF529	57711	hgsc.bcm.edu	37	19	37038092	37038092	+	Silent	SNP	T	T	C	rs2278168	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	53	99	0	0.53	0	T|0.774;C|0.226	0.226	strong	.	ZNF529	82	.	NM_001145649	exon6	c.A1368G	p.G456G	GAACTTTCCACAC	.	PASS	Atlas-SNP
FAM98C	147965	hgsc.bcm.edu	37	19	38896204	38896204	+	Missense_Mutation	SNP	T	T	G	rs117354953	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	42	66	0	0.494118	0	T|0.989;G|0.011	0.011	strong	FAM98C,NS,carcinoma,-1,1	FAM98C	39	1	NM_174905	exon6	c.T679G	p.C227G	TACCGCTGCCGCC	.	PASS	Atlas-SNP
OR52H1	390067	hgsc.bcm.edu	37	11	5566051	5566051	+	Missense_Mutation	SNP	C	C	A	rs1995157	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	47	137	0	0.38843	0	C|0.525;A|0.475	0.475	strong	.	OR52H1	46	.	NM_001005289	exon1	c.G703T	p.G235C	GAAGGCCAAAGAC	.	PASS	Atlas-SNP
NFKBIZ	64332	hgsc.bcm.edu	37	3	101576175	101576175	+	Silent	SNP	T	T	C	rs14134	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	158	87	119	0	0.550633	0	T|0.427;C|0.573	0.573	strong	.	NFKBIZ	55	.	NM_031419	exon11	c.T1975C	p.L659L	GCCAGCTTGCAGT	.	PASS	Atlas-SNP
NLRP8	126205	hgsc.bcm.edu	37	19	56487603	56487603	+	Missense_Mutation	SNP	A	A	G	rs306481	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	238	238	240	0	1	0	A|0.474;G|0.526	0.526	strong	.	NLRP8	225	.	NM_176811	exon8	c.A2810G	p.K937R	GCCTGAAGGATGA	.	PASS	Atlas-SNP
IL3RA	3563	hgsc.bcm.edu	37	X	1497644	1497644	+	Missense_Mutation	SNP	G	G	C	rs17883366	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	331	153	320	0	0.462236	0	G|0.868;C|0.132	0.132	strong	.	IL3RA	49	.	NM_002183	exon10	c.G967C	p.V323L	GTCTTCGTGATCT	.	PASS	Atlas-SNP
CEP89	84902	hgsc.bcm.edu	37	19	33414392	33414392	+	Silent	SNP	T	T	C	rs17599843	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	97	213	0	0.449074	0	T|0.995;C|0.005	0.005	strong	.	CEP89	82	.	NM_032816	exon12	c.A1221G	p.E407E	GTGCAATTCTTCA	.	PASS	Atlas-SNP
UGT2B28	54490	hgsc.bcm.edu	37	4	70156313	70156313	+	Missense_Mutation	SNP	T	T	A	rs78893064		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	98	282	0	0.98	0	.	.	weak	.	UGT2B28	101	.	NM_053039	exon5	c.T1094A	p.L365H	TAGGTCTTCCAAA	.	PASS	Atlas-SNP
AHSA1	10598	hgsc.bcm.edu	37	14	77926011	77926011	+	Silent	SNP	C	C	T	rs1061629	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	64	129	0	0.551724	0	C|0.563;T|0.437	0.437	strong	.	AHSA1	24	.	NM_012111	exon2	c.C133T	p.L45L	CTGTTCCTGGCAG	.	PASS	Atlas-SNP
MPP3	4356	hgsc.bcm.edu	37	17	41891437	41891437	+	Silent	SNP	G	G	A	rs17742929	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	46	85	0	0.534884	0	G|0.872;A|0.128	0.128	strong	.	MPP3	42	.	NM_001932	exon16	c.C1197T	p.H399H	CAGCTCGTGCAGT	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134626293	134626293	+	Missense_Mutation	SNP	C	C	A	rs3750587	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	39	23	31	0	0.589744	0	C|0.954;A|0.046	0.046	strong	.	TTC40	100	.	NM_001200049	exon55	c.G7497T	p.L2499F	ACCTTGCAAGTTC	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29759225	29759225	+	Silent	SNP	A	A	G	rs11007607	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	95	225	0	0.475	0	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	.	PASS	Atlas-SNP
SCML4	256380	hgsc.bcm.edu	37	6	108068003	108068003	+	Missense_Mutation	SNP	C	C	T	rs6934505	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	104	105	1	0.971963	0.00952381	C|0.875;T|0.125	0.125	strong	.	SCML4	65	.	NM_198081	exon4	c.G377A	p.R126Q	GATGGCCGCTCGG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	71	107	0	0.529851	0	C|0.867;N|0.001	.	strong	.	COG1	46	.	NM_018714	exon7	c.C1473T	p.S491S	GGTCAGCGTGGCA	.	PASS	Atlas-SNP
SKAP1	8631	hgsc.bcm.edu	37	17	46266849	46266849	+	Silent	SNP	G	G	A	rs66753385	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	62	138	0	0.534483	0	G|0.965;A|0.035	0.035	strong	.	SKAP1	41	.	NM_003726	exon5	c.C294T	p.I98I	TTTTACGATGTCT	.	PASS	Atlas-SNP
OGFOD1	55239	hgsc.bcm.edu	37	16	56500132	56500132	+	Missense_Mutation	SNP	C	C	T	rs34883368	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	52	96	0	0.448276	0	C|0.958;T|0.042	0.042	strong	.	OGFOD1	31	.	NM_018233	exon5	c.C517T	p.P173S	GTTCCTCCCTGGG	.	PASS	Atlas-SNP
ZMYND12	84217	hgsc.bcm.edu	37	1	42898843	42898843	+	Missense_Mutation	SNP	A	A	G	rs1034268	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	65	122	0	0.619048	0	A|0.361;G|0.639	0.639	strong	.	ZMYND12	35	.	NM_032257	exon7	c.T946C	p.F316L	AGTAAAACATGAC	.	PASS	Atlas-SNP
TTC28	23331	hgsc.bcm.edu	37	22	28501580	28501580	+	Silent	SNP	G	G	A	rs189318371	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	232	129	201	0	0.556035	0	G|0.997;A|0.003	0.003	strong	.	TTC28	84	.	NM_001145418	exon8	c.C2994T	p.D998D	GGCTGCGTCACTC	.	PASS	Atlas-SNP
ALG8	79053	hgsc.bcm.edu	37	11	77825320	77825320	+	Missense_Mutation	SNP	T	T	C	rs665278	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	32	74	0	0.376471	0	T|0.842;C|0.158	0.158	strong	.	ALG8	54	.	NM_024079	exon6	c.A665G	p.N222S	GGTTTATTTGCAG	.	PASS	Atlas-SNP
SLC22A20	440044	hgsc.bcm.edu	37	11	64981522	64981522	+	Missense_Mutation	SNP	C	C	A	rs11605576	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	37	68	0	0.552239	0	C|0.706;A|0.294	0.294	strong	SLC22A20,NS,carcinoma,0,2	SLC22A20	36	2	NM_001004326	exon1	c.C179A	p.A60D	CTGAGGCCTCCAC	.	PASS	Atlas-SNP
CEP104	9731	hgsc.bcm.edu	37	1	3761479	3761479	+	Silent	SNP	C	C	T	rs2275822	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	31	78	0	0.563636	0	C|0.630;T|0.370	0.370	strong	.	CEP104	79	.	NM_014704	exon6	c.G558A	p.T186T	GGCGTACGTTCCT	.	PASS	Atlas-SNP
ZC3H3	23144	hgsc.bcm.edu	37	8	144620855	144620855	+	Missense_Mutation	SNP	C	C	A	rs4873802	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	21	33	0	0.525	0	C|0.858;A|0.142	0.142	strong	.	ZC3H3	75	.	NM_015117	exon2	c.G682T	p.A228S	AGCTCGCCTTGAC	.	PASS	Atlas-SNP
CECR5	27440	hgsc.bcm.edu	37	22	17640045	17640045	+	Missense_Mutation	SNP	G	G	A	rs7287672	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	5	5	1	0	1	0	G|0.785;A|0.215	0.215	strong	.	CECR5	46	.	NM_033070	exon1	c.C97T	p.R33C	ACCTGCGGGCGGG	.	PASS	Atlas-SNP
KRT25	147183	hgsc.bcm.edu	37	17	38910676	38910676	+	Missense_Mutation	SNP	G	G	C	rs146092638	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	56	141	0	0.386207	0	A|0.000;C|0.000;G|1.000	0.000	strong	.	KRT25	63	.	NM_181534	exon2	c.C474G	p.I158M	ATTATCGATCTGC	.	PASS	Atlas-SNP
WAPAL	23063	hgsc.bcm.edu	37	10	88260252	88260252	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	3	218	0	0.0126582	0	.	.	none	WAPAL,NS,carcinoma,0,1	WAPAL	81	1	NM_015045	exon3	c.G748T	p.D250Y	TACAGTCTTCTGA	.	scavenged	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1268485	1268485	+	Silent	SNP	C	C	T	rs2738891	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	16	14	67	0	0.875	0	C|0.936;T|0.064	0.064	strong	.	CACNA1H	317	.	NM_021098	exon33	c.C5721T	p.G1907G	TCCGGGCGCCAGG	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196749504	196749504	+	Silent	SNP	G	G	A	rs60214909	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	30	57	0	0.405405	0	G|0.877;A|0.123	0.123	strong	.	DNAH7	512	.	NM_018897	exon35	c.C5568T	p.S1856S	ACCAACGGACCAG	.	PASS	Atlas-SNP
ZSCAN5A	79149	hgsc.bcm.edu	37	19	56735015	56735015	+	Silent	SNP	T	T	C	rs4801692	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	44	87	0	0.494382	0	T|0.937;C|0.063	0.063	strong	.	ZSCAN5A	118	.	NM_024303	exon3	c.A573G	p.A191A	GGACAATGCAGGG	.	PASS	Atlas-SNP
GNAT1	2779	hgsc.bcm.edu	37	3	50232262	50232262	+	Silent	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	31	95	0	0.356322	0	.	.	none	.	GNAT1	39	.	NM_144499	exon8	c.G927T	p.R309R	CATGCGGCGCGAC	.	PASS	Atlas-SNP
SEC24B	10427	hgsc.bcm.edu	37	4	110384790	110384790	+	Silent	SNP	A	A	G	rs33911248	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	47	83	0	0.460784	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
KAT6A	7994	hgsc.bcm.edu	37	8	41794934	41794934	+	Silent	SNP	C	C	T	rs13748	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	312	146	310	0	0.467949	0	C|0.720;T|0.280	0.280	strong	.	.	.	.	NM_001099412	exon17	c.G3192A	p.T1064T	CTCAAACGTGGGT	.	PASS	Atlas-SNP
ANXA4	307	hgsc.bcm.edu	37	2	70033584	70033584	+	Missense_Mutation	SNP	C	C	T	rs2228203	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	334	145	254	0	0.434132	0	C|0.770;A|0.001	.	strong	.	ANXA4	34	.	NM_001153	exon5	c.C260T	p.T87M	TGATGACGCCCAC	.	PASS	Atlas-SNP
ZNF610	162963	hgsc.bcm.edu	37	19	52856955	52856955	+	Silent	SNP	C	C	T	rs1961205	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	56	47	0	1	0	C|0.610;T|0.390	0.390	strong	ZNF610,NS,carcinoma,+1,2	ZNF610	84	2	NM_001161427	exon4	c.C84T	p.D28D	CATGGACGTGGCC	.	PASS	Atlas-SNP
CIT	11113	hgsc.bcm.edu	37	12	120166407	120166407	+	Missense_Mutation	SNP	T	T	C	rs145731510	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	41	59	0	0.561644	0	T|0.999;C|0.001	0.001	strong	.	CIT	535	.	NM_001206999	exon28	c.A3491G	p.N1164S	AGGTCATTGAGCT	.	PASS	Atlas-SNP
SELE	6401	hgsc.bcm.edu	37	1	169698643	169698643	+	Missense_Mutation	SNP	T	T	G	rs41272475	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	190	79	176	0	0.415789	0	T|0.996;G|0.004	0.004	strong	.	SELE	84	.	NM_000450	exon6	c.A887C	p.K296T	GTTGGCTTCTCGT	.	PASS	Atlas-SNP
ZNF618	114991	hgsc.bcm.edu	37	9	116764283	116764283	+	Silent	SNP	C	C	T	rs4978561	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	97	117	0	1	0	C|0.645;T|0.355	0.355	strong	.	ZNF618	184	.	NM_133374	exon4	c.C345T	p.Y115Y	GTCTTACGAATGC	.	PASS	Atlas-SNP
HIST1H1B	3009	hgsc.bcm.edu	37	6	27835218	27835218	+	Silent	SNP	G	G	A	rs17763089	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	79	135	0	0.44382	0	G|0.945;A|0.055	0.055	strong	.	HIST1H1B	54	.	NM_005322	exon1	c.C90T	p.G30G	GCCGGCGCCGGCA	.	PASS	Atlas-SNP
C1orf192	257177	hgsc.bcm.edu	37	1	161335414	161335414	+	Missense_Mutation	SNP	G	G	A	rs141881555	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	175	186	0	0.634058	0	G|0.999;A|0.001	0.001	strong	.	C1orf192	20	.	NM_001013625	exon4	c.C250T	p.R84C	TTGTACGGGAGGT	.	PASS	Atlas-SNP
SLC25A29	123096	hgsc.bcm.edu	37	14	100759046	100759046	+	Silent	SNP	C	C	A	rs3825555	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	18	12	45	0	0.666667	0	C|0.465;A|0.535	0.535	strong	SLC25A29,NS,carcinoma,0,1	SLC25A29	14	1	NM_001039355	exon4	c.G486T	p.T162T	GCTGGGCGTCTCA	.	PASS	Atlas-SNP
FAM5B	57795	hgsc.bcm.edu	37	1	177245369	177245369	+	Missense_Mutation	SNP	C	C	T	rs145109858	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224	126	193	0	0.5625	0	C|1.000;T|0.000	0.000	strong	FAM5B,NS,carcinoma,0,3	FAM5B	191	3	NM_021165	exon6	c.C811T	p.R271C	CGTGAGCGCTTTG	.	PASS	Atlas-SNP
NPC1	4864	hgsc.bcm.edu	37	18	21119777	21119777	+	Silent	SNP	G	G	A	rs1140458	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	41	126	0	0.350427	0	T|0.094;G|0.438;C|0.101;A|0.366	0.366	strong	NPC1,NS,carcinoma,0,1	NPC1	114	1	NM_000271	exon18	c.C2793T	p.N931N	TGACTAGTTGTCC	.	PASS	Atlas-SNP
FRG2B	441581	hgsc.bcm.edu	37	10	135438933	135438933	+	Silent	SNP	C	C	T	rs200793608		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	580	12	494	5	0.0206897	0.0101215	C|0.996;T|0.004	0.004	weak	FRG2B,colon,carcinoma,-1,1	FRG2B	47	1	NM_001080998	exon4	c.G507A	p.P169P	AATTGACGGTGTT	.	scavenged	Atlas-SNP
CDH17	1015	hgsc.bcm.edu	37	8	95158382	95158382	+	Silent	SNP	C	C	T	rs1131830	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	68	139	0	0.4	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
PRB2	653247	hgsc.bcm.edu	37	12	11546192	11546192	+	Missense_Mutation	SNP	G	G	A	rs10845349	bycluster;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	419	315	361	1	0.75179	0.00277008	G|0.771;A|0.229	0.229	strong	PRB2_ENST00000389362,brain,glioma,0,8	PRB2	168	8	NM_006248	exon3	c.C820T	p.P274S	CTTGAGGTTTGTT	.	PASS	Atlas-SNP
FMNL2	114793	hgsc.bcm.edu	37	2	153468107	153468107	+	Silent	SNP	C	C	T	rs35776654	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	36	101	0	0.473684	0	C|0.918;T|0.082	0.082	strong	FMNL2,NS,carcinoma,0,1	FMNL2	75	1	NM_052905	exon11	c.C1050T	p.D350D	CCTGGACGAATAC	.	PASS	Atlas-SNP
LAD1	3898	hgsc.bcm.edu	37	1	201358304	201358304	+	Missense_Mutation	SNP	C	C	A	rs3738281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	72	155	0	0.356436	0	C|0.826;A|0.174	0.174	strong	.	LAD1	42	.	NM_005558	exon2	c.G166T	p.A56S	CAGAGGCCTGCCG	.	PASS	Atlas-SNP
ATXN3	4287	hgsc.bcm.edu	37	14	92537354	92537354	+	Missense_Mutation	SNP	C	C	G	rs12895357	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	24	55	0	0.342857	0	C|0.783;G|0.217	0.217	strong	ATXN3,NS,carcinoma,0,2	ATXN3	46	2	NM_004993	exon10	c.G916C	p.G306R	GGTCCCCCTGCTG	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	37	20	62378418	62378418	+	Silent	SNP	C	C	T	rs74552928	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	18	7	35	0	0.388889	0	C|0.926;T|0.074	0.074	strong	.	ZBTB46	72	.	NM_025224	exon5	c.G1635A	p.A545A	CTCCTCCGCCTCC	.	PASS	Atlas-SNP
PBXIP1	57326	hgsc.bcm.edu	37	1	154919080	154919080	+	Missense_Mutation	SNP	C	C	T	rs2061690	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	24	24	48	0	1	0	C|0.565;T|0.435	0.435	strong	.	PBXIP1	59	.	NM_020524	exon10	c.G1070A	p.G357D	CCTCTACCCCCAC	.	PASS	Atlas-SNP
THSD7A	221981	hgsc.bcm.edu	37	7	11521542	11521542	+	Silent	SNP	T	T	C	rs3735502	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	125	263	1	0.469925	0.00380228	T|0.800;C|0.200	0.200	strong	.	THSD7A	219	.	NM_015204	exon7	c.A1890G	p.P630P	CGGGCATGGGGCA	.	PASS	Atlas-SNP
ANO3	63982	hgsc.bcm.edu	37	11	26656563	26656563	+	Silent	SNP	C	C	T	rs7946841	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	126	111	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
DPH1	1801	hgsc.bcm.edu	37	17	1939971	1939971	+	Silent	SNP	G	G	A	rs61753099	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	172	77	186	0	0.447674	0	G|0.936;A|0.064	0.064	strong	.	DPH1	32	.	NM_001383	exon5	c.G564A	p.S188S	TGTGTCGACCTTG	.	PASS	Atlas-SNP
ALKBH1	8846	hgsc.bcm.edu	37	14	78140329	78140329	+	Silent	SNP	G	G	A	rs6493	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	72	162	0	0.439024	0	G|0.869;A|0.131	0.131	strong	.	ALKBH1	30	.	NM_006020	exon6	c.C996T	p.S332S	CAAGTAGCTGGCA	.	PASS	Atlas-SNP
FBXO6	26270	hgsc.bcm.edu	37	1	11733846	11733846	+	Missense_Mutation	SNP	C	C	A	rs148957324	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	95	264	0	0.390947	0	C|0.994;A|0.006	0.006	strong	.	FBXO6	17	.	NM_018438	exon6	c.C820A	p.Q274K	CCTGGGCAGAAGC	.	PASS	Atlas-SNP
PRAME	23532	hgsc.bcm.edu	37	22	22890752	22890752	+	Silent	SNP	A	A	G	rs17497512	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	45	20	37	0	0.444444	0	A|0.896;G|0.104	0.104	strong	PRAME,NS,carcinoma,+2,1	PRAME	78	1	NM_206954	exon6	c.T1267C	p.L423L	TCTGCAAGGCAGA	.	PASS	Atlas-SNP
DISC1	27185	hgsc.bcm.edu	37	1	231830295	231830295	+	Missense_Mutation	SNP	G	G	A	rs3738401	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	30	57	0	0.47619	0	G|0.746;A|0.254	0.254	strong	DISC1_ENST00000366638,NS,carcinoma,+1,3	DISC1	207	3	NM_001164541	exon2	c.G791A	p.R264Q	TCTCTCGGCCCTT	.	PASS	Atlas-SNP
ASB2	51676	hgsc.bcm.edu	37	14	94417586	94417586	+	Silent	SNP	G	G	A	rs4483793	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	16	33	0	0.592593	0	G|0.404;A|0.596	0.596	strong	ASB2,NS,carcinoma,-2,1	ASB2	71	1	NM_001202429	exon6	c.C639T	p.C213C	GCGCTCGCAGGCT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	290	127	290	0	0.437931	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
CNTNAP4	85445	hgsc.bcm.edu	37	16	76587202	76587202	+	Missense_Mutation	SNP	T	T	G	rs7202925	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	99	208	0	0.518325	0	T|0.706;G|0.294	0.294	strong	CNTNAP4_ENST00000478060,NS,carcinoma,0,1	CNTNAP4	600	1	NM_138994	exon21	c.T3246G	p.D1082E	CCAGGATACTGCA	.	PASS	Atlas-SNP
OR52D1	390066	hgsc.bcm.edu	37	11	5510688	5510688	+	Missense_Mutation	SNP	T	T	C	rs7101919	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	90	81	0	0.967742	0	C|0.204;N|0.000	0.204	strong	.	OR52D1	66	.	NM_001005163	exon1	c.T752C	p.I251T	GCATCATCCTGGT	.	PASS	Atlas-SNP
POGK	57645	hgsc.bcm.edu	37	1	166819117	166819117	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	2	81	0	0.025	0	.	.	none	POGK,NS,carcinoma,0,3	POGK	54	3	NM_017542	exon5	c.G1301A	p.R434H	AAATTCGCTGCCA	.	scavenged	Atlas-SNP
ASGR2	433	hgsc.bcm.edu	37	17	7004927	7004927	+	Silent	SNP	C	C	T	rs11653054	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	39	95	0	0.549296	0	C|0.980;T|0.020	0.020	strong	.	ASGR2	38	.	NM_080912	exon9	c.G903A	p.E301E	CCTTTTCTCACAC	.	PASS	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50532588	50532588	+	Missense_Mutation	SNP	C	C	G	rs10857469	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	46	80	0	0.489362	0	C|0.906;G|0.094	0.094	strong	.	C10orf71	179	.	NM_001135196	exon3	c.C1998G	p.H666Q	GACCCACCAGCTA	.	PASS	Atlas-SNP
NDUFAB1	4706	hgsc.bcm.edu	37	16	23607504	23607504	+	Silent	SNP	G	G	C	rs466719	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	22	34	0	0.536585	0	G|0.883;C|0.117	0.117	strong	NDUFAB1,NS,carcinoma,0,1	NDUFAB1	8	1	NM_005003	exon1	c.C108G	p.L36L	GGAGCAGAGAGCG	.	PASS	Atlas-SNP
OVCH1	341350	hgsc.bcm.edu	37	12	29628016	29628016	+	Silent	SNP	G	G	A	rs2043623	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	73	225	0	0.388298	0	G|0.461;A|0.539	0.539	strong	OVCH1,NS,carcinoma,0,1	OVCH1	195	1	NM_183378	exon14	c.C1578T	p.A526A	AAATCTGGCCTTG	.	PASS	Atlas-SNP
FAM209A	200232	hgsc.bcm.edu	37	20	55100054	55100054	+	Missense_Mutation	SNP	C	C	T	rs2019515	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	311	35	248	0	0.11254	0	C|1.000;T|0.000	0.000	weak	C20orf106,caecum,carcinoma,0,1	.	.	1	NM_001012971	exon1	c.C190T	p.L64F	TGGCTTCTTTTTG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9049726	9049726	+	Silent	SNP	G	G	A	rs11670328	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	104	222	0	0.497608	0	G|0.737;A|0.263	0.263	strong	.	MUC16	4315	.	NM_024690	exon5	c.C31905T	p.D10635D	GCTGACGTCTGCC	.	PASS	Atlas-SNP
INPP4B	8821	hgsc.bcm.edu	37	4	143324094	143324094	+	Silent	SNP	G	G	A	rs1982966	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	17	43	0	0.293103	0	G|0.743;A|0.257	0.257	strong	INPP4B,NS,carcinoma,0,1	INPP4B	132	1	NM_003866	exon8	c.C369T	p.D123D	TACGGTGTCATGA	.	PASS	Atlas-SNP
NBPF7	343505	hgsc.bcm.edu	37	1	120384205	120384205	+	Silent	SNP	A	A	G	rs2994820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	161	57	167	0	0.354037	0	A|0.333;G|0.667	0.667	strong	.	NBPF7	46	.	NM_001047980	exon3	c.T357C	p.V119V	AGAGTGAACCAGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512822	195512822	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	583	17	301	9	0.0291595	0.0299003	.	.	none	MUC4_ENST00000463781,NS,carcinoma,+2,2	MUC4	1505	2	NM_018406	exon2	c.G5629A	p.D1877N	AAGCGTCGGTGAC	.	scavenged	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141337177	141337177	+	Missense_Mutation	SNP	G	G	C	rs138689340	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	125	195	0	0.631313	0	G|0.986;C|0.014	0.014	strong	.	PCDH12	133	.	NM_016580	exon1	c.C240G	p.D80E	CTCAGAGTCCACC	.	PASS	Atlas-SNP
POTEF	728378	hgsc.bcm.edu	37	2	130832185	130832185	+	Missense_Mutation	SNP	G	G	A	rs62165870		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	260	49	216	5	0.188462	0.0231481	.	.	weak	POTEF,NS,carcinoma,0,1	POTEF	140	1	NM_001099771	exon17	c.C2860T	p.R954W	GGAACCGCTCGTT	.	scavenged	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	37	9	78969059	78969059	+	Missense_Mutation	SNP	C	C	A	rs7036921	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	236	107	198	1	0.45339	0.00505051	C|0.769;A|0.231	0.231	strong	PCSK5_ENST00000545128,NS,carcinoma,+1,1	PCSK5	329	1	NM_001190482	exon36	c.C5097A	p.D1699E	GGACGACAGCCAC	.	scavenged	Atlas-SNP
TENM1	10178	hgsc.bcm.edu	37	X	123554646	123554646	+	Silent	SNP	T	T	C	rs12013090	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	105	201	1	0.990566	0.00497512	T|0.812;C|0.188	0.188	strong	.	.	.	.	NM_001163278	exon25	c.A4497G	p.A1499A	CATCTTTGCATCT	.	PASS	Atlas-SNP
HRH4	59340	hgsc.bcm.edu	37	18	22056970	22056970	+	Missense_Mutation	SNP	A	A	G	rs11662595	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	50	128	0	0.373134	0	A|0.927;G|0.073	0.073	strong	.	HRH4	46	.	NM_021624	exon3	c.A617G	p.H206R	GTGATCATCTCAG	.	PASS	Atlas-SNP
VSX2	338917	hgsc.bcm.edu	37	14	74711883	74711883	+	Silent	SNP	C	C	T	rs35435463	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	23	37	0	0.291139	0	C|0.634;T|0.366	0.366	strong	.	VSX2	32	.	NM_182894	exon3	c.C471T	p.S157S	TACCTCCTACCAG	.	PASS	Atlas-SNP
UTP20	27340	hgsc.bcm.edu	37	12	101755809	101755809	+	Silent	SNP	T	T	C	rs12309241	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	102	93	0	1	0	T|0.737;C|0.263	0.263	strong	.	UTP20	222	.	NM_014503	exon44	c.T5761C	p.L1921L	GGAGATTTGGACT	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104171856	104171856	+	Silent	SNP	C	C	T	rs17772514	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	54	123	0	0.504673	0	C|0.953;T|0.047	0.047	strong	.	ZNF189	79	.	NM_003452	exon3	c.C1806T	p.D602D	ATGTGACGCTTGT	.	PASS	Atlas-SNP
SLC7A6OS	84138	hgsc.bcm.edu	37	16	68337948	68337948	+	Missense_Mutation	SNP	T	T	C	rs11548855	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	87	206	0	0.432836	0	T|0.956;C|0.044	0.044	strong	.	SLC7A6OS	22	.	NM_032178	exon3	c.A659G	p.Y220C	TGGCTGTAGGGCT	.	PASS	Atlas-SNP
PKD1L2	114780	hgsc.bcm.edu	37	16	81242198	81242198	+	Nonsense_Mutation	SNP	G	G	A	rs7499011	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	35	17	36	0	0.485714	0	G|0.742;A|0.258	0.258	strong	.	PKD1L2	361	.	NM_001076780	exon4	c.C658T	p.Q220X	GCTCCTGGCACTG	.	PASS	Atlas-SNP
NFATC1	4772	hgsc.bcm.edu	37	18	77246406	77246406	+	Missense_Mutation	SNP	T	T	G	rs754093	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	23	23	58	0	1	0	T|0.641;G|0.359	0.359	strong	NFATC1,NS,carcinoma,0,1	NFATC1	105	1	NM_006162	exon9	c.T2251G	p.C751G	CCGCCCTGTCCGC	.	scavenged	Atlas-SNP
HAAO	23498	hgsc.bcm.edu	37	2	42994814	42994814	+	Missense_Mutation	SNP	C	C	G	rs34053133	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	55	83	0	0.518868	0	C|0.996;G|0.004	0.004	strong	.	HAAO	26	.	NM_012205	exon9	c.G703C	p.G235R	AGGAGCCCTCCTG	.	PASS	Atlas-SNP
TGFBRAP1	9392	hgsc.bcm.edu	37	2	105924731	105924731	+	Missense_Mutation	SNP	C	C	G	rs201941079	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	23	58	0	0.410714	0	C|0.999;G|0.001	0.001	strong	.	TGFBRAP1	70	.	NM_004257	exon2	c.G28C	p.V10L	CAGAGACAAGCGT	.	PASS	Atlas-SNP
OR2A25	392138	hgsc.bcm.edu	37	7	143771557	143771557	+	Missense_Mutation	SNP	T	T	C	rs61731397	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	267	125	289	0	0.468165	0	T|0.882;C|0.118	0.118	strong	.	OR2A25	66	.	NM_001004488	exon1	c.T245C	p.V82A	TGCTGGTGAACCT	.	PASS	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	37	16	16251599	16251599	+	Missense_Mutation	SNP	C	C	T	rs2238472	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	34	60	0	0.472222	0	C|0.810;T|0.190	0.190	strong	.	ABCC6	110	.	NM_001171	exon27	c.G3803A	p.R1268Q	AAGTCCCGGAACT	.	PASS	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	37	1	17275382	17275382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	312	50	299	0	0.160256	0	.	.	none	CROCC,NS,haematopoietic_neoplasm,0,1	CROCC	185	1	NM_014675	exon19	c.G2797A	p.E933K	GAAGCCGAGGGGC	.	PASS	Atlas-SNP
KLHL6	89857	hgsc.bcm.edu	37	3	183226114	183226114	+	Silent	SNP	G	G	T	rs73188786	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	94	135	0	0.429224	0	G|0.917;T|0.083	0.083	strong	.	KLHL6	100	.	NM_130446	exon3	c.C642A	p.P214P	GTCCACGGGCAGG	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4845312	4845312	+	Silent	SNP	T	T	G	rs2306919	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	47	124	0	0.474747	0	T|0.748;G|0.252	0.252	strong	.	RADIL	110	.	NM_018059	exon10	c.A2175C	p.A725A	GCTCAGTGCGGGG	.	PASS	Atlas-SNP
SERPIND1	3053	hgsc.bcm.edu	37	22	21134023	21134023	+	Silent	SNP	G	G	A	rs35646566	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	92	168	0	0.497297	0	G|0.984;A|0.016	0.016	strong	.	SERPIND1	92	.	NM_000185	exon2	c.G423A	p.L141L	AGTGCTGAAAGAC	.	PASS	Atlas-SNP
LRIT3	345193	hgsc.bcm.edu	37	4	110791543	110791543	+	Silent	SNP	C	C	T	rs2347133	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	75	156	0	0.528169	0	C|0.804;T|0.196	0.196	strong	.	LRIT3	107	.	NM_198506	exon4	c.C1638T	p.P546P	GGAACCCGGTGGG	.	PASS	Atlas-SNP
C5orf46	389336	hgsc.bcm.edu	37	5	147286054	147286054	+	Missense_Mutation	SNP	G	G	A	rs2250145	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	351	351	362	0	1	0	G|0.523;A|0.477	0.477	strong	.	C5orf46	8	.	NM_206966	exon1	c.C11T	p.S4L	AGTACTGAGACAG	.	PASS	Atlas-SNP
REXO4	57109	hgsc.bcm.edu	37	9	136279935	136279935	+	Missense_Mutation	SNP	C	C	T	rs6597630	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	102	194	0	0.488038	0	C|0.889;T|0.111	0.111	strong	.	REXO4	27	.	NM_020385	exon2	c.G422A	p.R141K	GGCGCCCTCCTGT	.	PASS	Atlas-SNP
DNAJC30	84277	hgsc.bcm.edu	37	7	73097654	73097654	+	Missense_Mutation	SNP	C	C	T	rs1128349	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	28	16	34	0	0.571429	0	C|0.641;T|0.359	0.359	strong	.	DNAJC30	12	.	NM_032317	exon1	c.G100A	p.G34R	TCGCTCCTAGGCC	.	PASS	Atlas-SNP
SEC23IP	11196	hgsc.bcm.edu	37	10	121693246	121693246	+	Silent	SNP	A	A	G	rs34826964	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	154	79	125	0	0.512987	0	A|0.948;G|0.052	0.052	strong	SEC23IP,NS,carcinoma,0,1	SEC23IP	100	1	NM_007190	exon18	c.A2970G	p.T990T	TCGAACAATGAAC	.	PASS	Atlas-SNP
HIBCH	26275	hgsc.bcm.edu	37	2	191184475	191184475	+	Missense_Mutation	SNP	A	A	G	rs291466	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	394	207	372	0	0.525381	0	A|0.492;C|0.001	.	strong	.	HIBCH	28	.	NM_014362	exon1	c.T2C	p.M1T	TGCCCCATCGCCA	.	PASS	Atlas-SNP
PELI1	57162	hgsc.bcm.edu	37	2	64327592	64327592	+	Silent	SNP	T	T	C	rs329497	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	155	137	0	1	0	T|0.705;C|0.295	0.295	strong	.	PELI1	34	.	NM_020651	exon4	c.A243G	p.L81L	CCGAGATAAAGTA	.	PASS	Atlas-SNP
SLC2A14	144195	hgsc.bcm.edu	37	12	7967076	7967076	+	Silent	SNP	A	A	G	rs10845983	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	145	73	125	1	0.503448	0.008	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	.	scavenged	Atlas-SNP
SIRPG	55423	hgsc.bcm.edu	37	20	1629906	1629906	+	Silent	SNP	C	C	T	rs6079967	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	446	446	407	2	1	0.004914	C|0.593;T|0.407	0.407	strong	SIRPG,right_upper_lobe,carcinoma,-1,2	SIRPG	61	2	NM_001039508	exon2	c.G222A	p.R74R	TAATTCCCGGCCT	.	PASS	Atlas-SNP
L2HGDH	79944	hgsc.bcm.edu	37	14	50769717	50769717	+	Silent	SNP	G	G	A	rs2297995	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	32	46	0	0.507937	0	G|0.419;A|0.581	0.581	strong	.	L2HGDH	33	.	NM_024884	exon2	c.C159T	p.I53I	ACCAACGATGACT	.	PASS	Atlas-SNP
PCDH20	64881	hgsc.bcm.edu	37	13	61986314	61986314	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	149	2	132	0	0.0134228	0	.	.	none	PCDH20_ENST00000409186,NS,adenocarcinoma,+2,2	PCDH20	265	2	NM_022843	exon2	c.A1918G	p.I640V	TGTTGATAAACCG	.	scavenged	Atlas-SNP
SETD1B	23067	hgsc.bcm.edu	37	12	122261456	122261456	+	Silent	SNP	G	G	A	rs3741593	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	30	54	0	0.697674	0	G|0.591;A|0.409	0.409	strong	.	SETD1B	105	.	NM_015048	exon12	c.G4842A	p.A1614A	ACCTGCGGGCTCG	.	PASS	Atlas-SNP
NAB2	4665	hgsc.bcm.edu	37	12	57485291	57485291	+	Missense_Mutation	SNP	G	G	A	rs140433833	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	23	51	0	0.560976	0	G|0.997;A|0.003	0.003	strong	NAB2,NS,carcinoma,-1,1	NAB2	47	1	NM_005967	exon2	c.G467A	p.R156H	GTGCCCGCAGTTT	.	PASS	Atlas-SNP
TMEM86B	255043	hgsc.bcm.edu	37	19	55739605	55739605	+	Silent	SNP	C	C	T	rs4606850	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	64	76	0	1	0	C|0.829;T|0.171	0.171	strong	.	TMEM86B	12	.	NM_173804	exon2	c.G252A	p.S84S	CACAGCCGAGCAC	.	PASS	Atlas-SNP
COL20A1	57642	hgsc.bcm.edu	37	20	61951489	61951489	+	Silent	SNP	G	G	C	rs6089881	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	13	13	27	0	1	0	G|0.094;C|0.906	0.906	strong	.	COL20A1	137	.	NM_020882	exon24	c.G3015C	p.A1005A	CGCTGCGGGCTTC	.	PASS	Atlas-SNP
NLK	51701	hgsc.bcm.edu	37	17	26519204	26519204	+	Silent	SNP	C	C	T	rs3182380	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	61	98	0	0.455224	0	C|0.967;T|0.033	0.033	strong	.	NLK	88	.	NM_016231	exon10	c.C1494T	p.I498I	CTGCATCAACCCT	.	PASS	Atlas-SNP
COL24A1	255631	hgsc.bcm.edu	37	1	86512536	86512536	+	Missense_Mutation	SNP	C	C	T	rs60891279	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	96	217	0	0.561404	0	C|0.832;T|0.168	0.168	strong	COL24A1,NS,carcinoma,-1,1	COL24A1	202	1	NM_152890	exon12	c.G1922A	p.R641H	TTTCCACGGATCC	.	PASS	Atlas-SNP
MLST8	64223	hgsc.bcm.edu	37	16	2257105	2257105	+	Silent	SNP	C	C	G	rs26862	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	73	135	0	0.548872	0	C|0.581;G|0.419	0.419	strong	.	MLST8	60	.	NM_001199174	exon5	c.C414G	p.P138P	GCACCCCAACCAG	.	PASS	Atlas-SNP
DDX60L	91351	hgsc.bcm.edu	37	4	169369920	169369920	+	Missense_Mutation	SNP	C	C	T	rs12507582	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	180	82	217	0	0.455556	0	C|0.632;T|0.368	0.368	strong	.	DDX60L	116	.	NM_001012967	exon9	c.G1007A	p.C336Y	TATTCACACCACT	.	PASS	Atlas-SNP
DTX2	113878	hgsc.bcm.edu	37	7	76121509	76121509	+	Silent	SNP	C	C	T	rs2302541	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	653	84	612	1	0.128637	0.00163399	C|1.000;|0.000	.	weak	DTX2,NS,carcinoma,0,1	DTX2	64	1	NM_001102596	exon3	c.C948T	p.S316S	AGGGAGCGTCCCT	.	scavenged	Atlas-SNP
PTPLAD2	401494	hgsc.bcm.edu	37	9	21029330	21029330	+	Missense_Mutation	SNP	T	T	C	rs2298260	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	57	201	0	0.372549	0	T|0.655;C|0.345	0.345	strong	.	PTPLAD2	26	.	NM_001010915	exon2	c.A106G	p.T36A	TATTTGTAAATAT	.	PASS	Atlas-SNP
LRWD1	222229	hgsc.bcm.edu	37	7	102105566	102105566	+	Silent	SNP	G	G	A	rs79978502	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	49	130	0	0.475728	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
COL4A2	1284	hgsc.bcm.edu	37	13	111098226	111098226	+	Silent	SNP	C	C	T	rs4103	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	78	114	0	0.527027	0	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	.	PASS	Atlas-SNP
EXO1	9156	hgsc.bcm.edu	37	1	242035438	242035438	+	Missense_Mutation	SNP	G	G	A	rs4149965	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	265	117	253	0	0.441509	0	G|0.851;A|0.149	0.149	strong	EXO1,caecum,carcinoma,0,2	EXO1	103	2	NM_006027	exon10	c.G1372A	p.V458M	TCTGAAGTGTTTG	.	PASS	Atlas-SNP
H1FNT	341567	hgsc.bcm.edu	37	12	48723324	48723324	+	Missense_Mutation	SNP	C	C	G	rs2732441	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	51	82	0	0.455357	0	C|0.798;G|0.202	0.202	strong	H1FNT,NS,carcinoma,0,2	H1FNT	30	2	NM_181788	exon1	c.C250G	p.R84G	GAGCTCCGAAACG	.	PASS	Atlas-SNP
ZNF626	199777	hgsc.bcm.edu	37	19	20808418	20808418	+	Missense_Mutation	SNP	G	G	C	rs8111015	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	48	85	0	0.40678	0	G|0.944;C|0.056	0.056	strong	.	ZNF626	121	.	NM_001076675	exon4	c.C265G	p.Q89E	TGCTCTGCTCTGG	.	PASS	Atlas-SNP
TXK	7294	hgsc.bcm.edu	37	4	48091768	48091768	+	Silent	SNP	G	G	A	rs17470585	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	103	156	0	0.544974	0	G|0.969;A|0.031	0.031	strong	.	TXK	58	.	NM_003328	exon9	c.C783T	p.Y261Y	TTTACCGTAGCTA	.	PASS	Atlas-SNP
ZNF224	7767	hgsc.bcm.edu	37	19	44612005	44612005	+	Silent	SNP	A	A	G	rs3746321	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	69	138	0	0.50365	0	A|0.318;G|0.682	0.682	strong	.	ZNF224	70	.	NM_013398	exon6	c.A1692G	p.G564G	CAGTGGAGAAAAA	.	PASS	Atlas-SNP
SLC6A5	9152	hgsc.bcm.edu	37	11	20673867	20673867	+	Silent	SNP	G	G	A	rs2276433	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	76	141	0	0.466258	0	G|0.601;T|0.003	.	strong	.	SLC6A5	151	.	NM_004211	exon15	c.G2103A	p.E701E	GTGGGAGCCCATG	.	PASS	Atlas-SNP
TIAM2	26230	hgsc.bcm.edu	37	6	155561796	155561796	+	Missense_Mutation	SNP	C	C	T	rs11751128	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	20	32	0	0.666667	0	C|0.825;T|0.175	0.175	strong	.	TIAM2	161	.	NM_012454	exon15	c.C3301T	p.R1101C	CGCCTCCGCAAAG	.	PASS	Atlas-SNP
HK3	3101	hgsc.bcm.edu	37	5	176314459	176314459	+	Silent	SNP	G	G	A	rs2278492	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	26	89	0	0.302326	0	G|0.694;A|0.306	0.306	strong	.	HK3	210	.	NM_002115	exon11	c.C1593T	p.D531D	GCTGCCGTCAGGG	.	PASS	Atlas-SNP
PRAMEF1	65121	hgsc.bcm.edu	37	1	12855720	12855720	+	Missense_Mutation	SNP	C	C	T	rs61735898		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	427	169	509	0	0.395785	0	C|0.986;T|0.014	0.014	weak	.	PRAMEF1	78	.	NM_023013	exon4	c.C1000T	p.R334C	CTGTTCCGCATCA	.	PASS	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	37	6	38773293	38773293	+	Missense_Mutation	SNP	G	G	A	rs874808	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	82	34	93	0	0.414634	0	G|0.502;A|0.498	0.498	strong	.	DNAH8	1239	.	NM_001206927	exon23	c.G3071A	p.G1024E	AAACAGGAGAGGG	.	PASS	Atlas-SNP
LGR6	59352	hgsc.bcm.edu	37	1	202287813	202287813	+	Silent	SNP	T	T	C	rs788793	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	213	137	0	1	0	T|0.445;C|0.555	0.555	strong	.	LGR6	102	.	NM_001017403	exon18	c.T2382C	p.F794F	CAGCTTTGCCTCC	.	PASS	Atlas-SNP
NES	10763	hgsc.bcm.edu	37	1	156640678	156640678	+	Missense_Mutation	SNP	G	G	A	rs2886443	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	81	143	0	0.476471	0	G|0.356;A|0.644	0.644	strong	NES,NS,carcinoma,0,1	NES	196	1	NM_006617	exon4	c.C3302T	p.P1101L	TGCCCCGGGCCTG	.	PASS	Atlas-SNP
TCIRG1	10312	hgsc.bcm.edu	37	11	67809268	67809268	+	Missense_Mutation	SNP	C	C	T	rs36027301	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	57	92	0	0.504425	0	C|0.964;T|0.036	0.036	strong	.	TCIRG1	40	.	NM_006019	exon3	c.C166T	p.R56W	GATGTTCGGCGCT	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97909661	97909661	+	Silent	SNP	A	A	C	rs2595357		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1204	149	1832	0	0.123754	0	.	.	weak	ANKRD36_ENST00000420699,right_lower_lobe,carcinoma,0,2	ANKRD36	170	2	NM_001164315	exon70	c.A4464C	p.I1488I	AAGAATAACAGAA	.	scavenged	Atlas-SNP
ART1	417	hgsc.bcm.edu	37	11	3681519	3681519	+	Missense_Mutation	SNP	T	T	C	rs2280134	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	33	32	27	0	0.969697	0	T|0.426;C|0.574	0.574	strong	.	ART1	21	.	NM_004314	exon3	c.T770C	p.L257P	GCAGACTGGCCCA	.	PASS	Atlas-SNP
CUL4A	8451	hgsc.bcm.edu	37	13	113897320	113897320	+	Silent	SNP	C	C	T	rs3764124	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	149	154	0	0.986755	0	C|0.794;T|0.206	0.206	strong	.	CUL4A	50	.	NM_001008895	exon11	c.C1074T	p.D358D	GAAAGACAAAGAC	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31604591	31604591	+	Missense_Mutation	SNP	C	C	T	rs10885	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	103	51	71	0	0.495146	0	C|0.836;T|0.164	0.164	strong	.	PRRC2A	152	.	NM_004638	exon28	c.C6016T	p.P2006S	CCACCTCCCCTTT	.	PASS	Atlas-SNP
BFSP2	8419	hgsc.bcm.edu	37	3	133167363	133167363	+	Silent	SNP	G	G	A	rs2276737	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	95	112	0	0.969388	0	G|0.551;A|0.449	0.449	strong	.	BFSP2	48	.	NM_003571	exon3	c.G603A	p.A201A	AAAGGCGGCAGAA	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32552016	32552016	+	Silent	SNP	C	C	A	rs17880973	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	22	57	0	0.205607	0	C|0.792;A|0.208	0.208	strong	.	HLA-DRB1	41	.	NM_002124	exon2	c.G240T	p.T80T	CAGCTCCGTCACC	.	PASS	Atlas-SNP
ZCWPW2	152098	hgsc.bcm.edu	37	3	28520417	28520417	+	Missense_Mutation	SNP	T	T	A	rs1563656	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	128	161	0	1	0	T|0.574;A|0.426	0.426	strong	.	ZCWPW2	49	.	NM_001040432	exon4	c.T605A	p.L202Q	CAAAACTACAAGG	.	PASS	Atlas-SNP
SLC52A3	113278	hgsc.bcm.edu	37	20	746197	746197	+	Missense_Mutation	SNP	G	G	C	rs35655964	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	61	104	0	0.539823	0	G|0.942;C|0.058	0.058	strong	.	.	.	.	NM_033409	exon2	c.C222G	p.I74M	GAAGATGATGGGC	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228547901	228547901	+	Silent	SNP	C	C	T	rs12035900	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	45	82	0	0.517241	0	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	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	246	115	236	1	0.46748	0.00423729	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
MUC4	4585	hgsc.bcm.edu	37	3	195515304	195515304	+	Silent	SNP	T	T	A	rs202019266		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	4	360	0	0.0218579	0	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.A3147T	p.A1049A	TGTGGATGCTGAG	.	scavenged	Atlas-SNP
HMBS	3145	hgsc.bcm.edu	37	11	118962230	118962230	+	Silent	SNP	G	G	T	rs1131488	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	170	76	166	0	0.447059	0	G|0.792;T|0.208	0.208	strong	.	HMBS	27	.	NM_000190	exon9	c.G606T	p.V202V	CCGGGTGGGGCAG	.	PASS	Atlas-SNP
PXK	54899	hgsc.bcm.edu	37	3	58395863	58395863	+	Missense_Mutation	SNP	A	A	G	rs56384862	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	37	89	0	0.486842	0	A|0.717;G|0.283	0.283	strong	PXK_ENST00000356151,NS,carcinoma,0,1	PXK	89	1	NM_017771	exon16	c.A1442G	p.K481R	CAGCGAAGTACAG	.	PASS	Atlas-SNP
ALPL	249	hgsc.bcm.edu	37	1	21894735	21894735	+	Missense_Mutation	SNP	T	T	C	rs3200254	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	30	113	0	0.3125	0	A|0.131;C|0.169	0.169	strong	.	ALPL	50	.	NM_000478	exon7	c.T787C	p.Y263H	CCGAGATACAAGG	.	PASS	Atlas-SNP
DEFB129	140881	hgsc.bcm.edu	37	20	210061	210061	+	Silent	SNP	G	G	A	rs13045643	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	43	75	1	0.5375	0.0133333	G|0.710;A|0.289	0.289	strong	DEFB129,NS,carcinoma,0,1	DEFB129	24	1	NM_080831	exon2	c.G201A	p.L67L	CTACCTGCAATAT	.	scavenged	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274235	39274235	+	Silent	SNP	G	G	A	rs11654403	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	98	72	1	0.890909	0.0138889	G|0.724;A|0.276	0.276	strong	KRTAP4-11,NS,carcinoma,0,1	KRTAP4-11	94	1	NM_033059	exon1	c.C333T	p.R111R	GCTGGGGCGACAG	.	scavenged	Atlas-SNP
FAM198A	729085	hgsc.bcm.edu	37	3	43095101	43095101	+	Missense_Mutation	SNP	A	A	G	rs536119	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	80	156	0	0.544218	0	A|0.413;G|0.587	0.587	strong	.	FAM198A	23	.	NM_001129908	exon3	c.A1379G	p.Q460R	AATGCCAGAACCC	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152186837	152186837	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	1140	88	264	0	0.077193	0	.	.	none	HRNR,NS,carcinoma,0,4	HRNR	403	4	NM_001009931	exon3	c.G7268A	p.R2423Q	CCATGTCGGCCAC	.	scavenged	Atlas-SNP
KCNB2	9312	hgsc.bcm.edu	37	8	73850203	73850203	+	Silent	SNP	G	G	A	rs11782118	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	57	98	0	0.463415	0	G|0.686;A|0.314	0.314	strong	.	KCNB2	228	.	NM_004770	exon3	c.G2613A	p.V871V	TGCTGTGAGTGAA	.	PASS	Atlas-SNP
EFCAB13	124989	hgsc.bcm.edu	37	17	45425287	45425287	+	Nonsense_Mutation	SNP	C	C	T	rs71377306	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	45	76	0	0.478723	0	C|0.948;T|0.052	0.052	strong	.	.	.	.	NM_152347	exon9	c.C631T	p.R211X	GAAATGCGACAGG	.	PASS	Atlas-SNP
ITGB6	3694	hgsc.bcm.edu	37	2	161029218	161029218	+	Silent	SNP	G	G	A	rs2305818	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	117	120	0	0.991525	0	G|0.727;A|0.273	0.273	strong	.	ITGB6	68	.	NM_000888	exon6	c.C783T	p.D261D	GAGGGAGTCATTC	.	PASS	Atlas-SNP
PLAT	5327	hgsc.bcm.edu	37	8	42036577	42036577	+	Silent	SNP	A	A	G	rs1136159	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	68	129	0	0.576271	0	A|0.908;G|0.092	0.092	strong	.	PLAT	62	.	NM_000930	exon13	c.T1368C	p.S456S	GAAAGGAGACACT	.	PASS	Atlas-SNP
PI3	5266	hgsc.bcm.edu	37	20	43804522	43804522	+	Missense_Mutation	SNP	A	A	C	rs2664581	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	151	77	140	0	0.509934	0	A|0.862;C|0.138	0.138	strong	.	PI3	21	.	NM_002638	exon2	c.A100C	p.T34P	CAAGACACTGTCA	.	PASS	Atlas-SNP
SLC37A3	84255	hgsc.bcm.edu	37	7	140080087	140080087	+	Missense_Mutation	SNP	C	C	G	rs62490396	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	46	87	0	0.484211	0	C|0.599;G|0.401	0.401	strong	SLC37A3,NS,carcinoma,0,1	SLC37A3	80	1	NM_207113	exon3	c.G193C	p.V65L	CCTCCACAGGCAG	.	PASS	Atlas-SNP
XYLT2	64132	hgsc.bcm.edu	37	17	48431032	48431032	+	Silent	SNP	G	G	A	rs739990	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	39	87	0	0.448276	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
SVEP1	79987	hgsc.bcm.edu	37	9	113169619	113169619	+	Missense_Mutation	SNP	A	A	G	rs199899670	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	260	121	264	0	0.465385	0	A|0.998;G|0.002	0.002	strong	.	SVEP1	326	.	NM_153366	exon38	c.T8261C	p.L2754S	AGCCTTAAGTCAG	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	38	94	0	0.345455	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
ARHGEF15	22899	hgsc.bcm.edu	37	17	8222455	8222455	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	2	89	0	0.0188679	0	.	.	none	ARHGEF15,NS,carcinoma,-1,1	ARHGEF15	97	1	NM_025014	exon13	c.C2164T	p.R722X	ACCCACCGACTAC	.	scavenged	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32548545	32548545	+	Silent	SNP	G	G	A	rs201168487	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	724	58	421	0	0.0801105	0	G|0.963;A|0.037	0.037	strong	.	HLA-DRB1	41	.	NM_002124	exon4	c.C741T	p.F247F	GTAGATGAACAGC	.	PASS	Atlas-SNP
MYT1L	23040	hgsc.bcm.edu	37	2	1946968	1946968	+	Silent	SNP	C	C	T	rs3748989	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	392	167	383	1	0.42602	0.00261097	C|0.830;T|0.170	0.170	strong	.	MYT1L	241	.	NM_015025	exon9	c.G291A	p.E97E	CATGTCCTCAGTC	.	PASS	Atlas-SNP
PLEKHG1	57480	hgsc.bcm.edu	37	6	151152656	151152656	+	Silent	SNP	T	T	C	rs803411	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	124	141	0	0.984127	0	T|0.326;C|0.674	0.674	strong	.	PLEKHG1	97	.	NM_001029884	exon16	c.T2409C	p.T803T	GGCCACTCCCGAT	.	PASS	Atlas-SNP
GBP4	115361	hgsc.bcm.edu	37	1	89652078	89652078	+	Missense_Mutation	SNP	A	A	T	rs608339	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	128	444	1	0.984615	0.00225225	A|0.658;T|0.342	0.342	strong	.	GBP4	89	.	NM_052941	exon10	c.T1645A	p.L549M	CCTCCAACTTCTT	.	PASS	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	37	2	84896628	84896628	+	Silent	SNP	G	G	A	rs17708884	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	34	77	0	0.485714	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
QSOX1	5768	hgsc.bcm.edu	37	1	180144485	180144485	+	Silent	SNP	G	G	A	rs10913939	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268	144	208	1	0.537313	0.00480769	G|0.866;A|0.134	0.134	strong	.	QSOX1	79	.	NM_002826	exon3	c.G396A	p.S132S	CGGCTCGGGAGCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195518330	195518330	+	Missense_Mutation	SNP	C	C	G	rs3107764	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	168	238	0	1	0	C|0.453;G|0.546	0.546	strong	.	MUC4	1505	.	NM_018406	exon2	c.G121C	p.A41P	GGGCAGCAGTTTT	.	PASS	Atlas-SNP
OR8G2	26492	hgsc.bcm.edu	37	11	124096247	124096247	+	Missense_Mutation	SNP	G	G	A	rs2466613	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	341	131	522	0	0.384164	0	G|0.495;A|0.505	0.505	strong	.	.	.	.	NM_001007249	exon1	c.G850A	p.G284R	GACCAGGGGAAAG	.	PASS	Atlas-SNP
MMRN2	79812	hgsc.bcm.edu	37	10	88717154	88717154	+	Missense_Mutation	SNP	C	C	T	rs3750823	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	45	76	0	0.48913	0	C|0.595;T|0.405	0.405	strong	MMRN2,NS,carcinoma,0,1	MMRN2	49	1	NM_024756	exon1	c.G145A	p.G49S	CCTTGCCGGTGTC	.	PASS	Atlas-SNP
SYMPK	8189	hgsc.bcm.edu	37	19	46352122	46352122	+	Silent	SNP	A	A	G	rs2303014	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	200	93	187	0	0.465	0	A|0.892;G|0.108	0.108	strong	SYMPK,colon,carcinoma,-2,1	SYMPK	104	1	NM_004819	exon6	c.T312C	p.I104I	CAACTCAATGTCT	.	PASS	Atlas-SNP
CDH11	1009	hgsc.bcm.edu	37	16	65022234	65022234	+	Missense_Mutation	SNP	C	C	T	rs1130821	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	100	183	0	0.50505	0	T|0.115;G|0.155;C|0.690;A|0.041	0.115	strong	.	CDH11	260	.	NM_001797	exon7	c.G825A	p.M275I	CACAGACATCTGG	.	PASS	Atlas-SNP
F5	2153	hgsc.bcm.edu	37	1	169510475	169510475	+	Missense_Mutation	SNP	G	G	T	rs1046712	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	653	329	570	0	0.503828	0	G|0.827;T|0.173	0.173	strong	.	F5	301	.	NM_000130	exon13	c.C3853A	p.L1285I	GAGAAAGGGTTGT	.	PASS	Atlas-SNP
CPS1	1373	hgsc.bcm.edu	37	2	211540507	211540507	+	Missense_Mutation	SNP	C	C	A	rs1047891	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	171	170	0	1	0	C|0.699;A|0.301	0.301	strong	.	CPS1	485	.	NM_001122633	exon37	c.C4235A	p.T1412N	CTGCCACCCCAGT	.	PASS	Atlas-SNP
RPGRIP1	57096	hgsc.bcm.edu	37	14	21770681	21770681	+	Silent	SNP	A	A	G	rs17792599	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	51	104	0	0.451327	0	A|0.857;G|0.142	0.142	strong	.	RPGRIP1	213	.	NM_020366	exon4	c.A525G	p.P175P	CCCTCCATCGTTT	.	PASS	Atlas-SNP
CTNNAL1	8727	hgsc.bcm.edu	37	9	111755008	111755008	+	Silent	SNP	C	C	T	rs2297581	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	264	112	247	0	0.424242	0	C|0.775;A|0.002	.	strong	.	CTNNAL1	51	.	NM_003798	exon3	c.G423A	p.V141V	CTTTATCACTCCT	.	PASS	Atlas-SNP
LANCL3	347404	hgsc.bcm.edu	37	X	37527659	37527659	+	Missense_Mutation	SNP	T	T	C	rs28503960	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	121	280	0	0.98374	0	T|0.847;C|0.153	0.153	strong	.	LANCL3	42	.	NM_198511	exon5	c.T1142C	p.L381P	ATCTGCTGTATAC	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	37	10	129904286	129904286	+	Missense_Mutation	SNP	G	G	A	rs146273614	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	403	163	348	0	0.404467	0	G|0.994;A|0.006	0.006	strong	.	MKI67	363	.	NM_002417	exon13	c.C5818T	p.R1940W	GTGGCCGTCTCTT	.	PASS	Atlas-SNP
SH3PXD2A	9644	hgsc.bcm.edu	37	10	105363289	105363289	+	Silent	SNP	T	T	C	rs3740471	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	28	109	0	0.474576	0	T|0.835;C|0.165	0.165	strong	.	SH3PXD2A	90	.	NM_014631	exon14	c.A1602G	p.A534A	GCCGAATGCAGGG	.	PASS	Atlas-SNP
ARHGAP21	57584	hgsc.bcm.edu	37	10	24908668	24908668	+	Missense_Mutation	SNP	T	T	C	rs142573508	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	65	154	0	0.454545	0	T|1.000;C|0.000	0.000	strong	.	ARHGAP21	185	.	NM_020824	exon9	c.A2156G	p.Q719R	GCCTCTTGTAAAC	.	PASS	Atlas-SNP
LRCH1	23143	hgsc.bcm.edu	37	13	47279258	47279258	+	Missense_Mutation	SNP	G	G	T	rs11617392	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	93	239	0	0.434579	0	G|0.982;T|0.018	0.018	strong	.	LRCH1	104	.	NM_015116	exon12	c.G1456T	p.A486S	GGATCAGCAGAAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507999	195507999	+	Silent	SNP	A	A	T	rs200187145		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	319	108	74	0	0.338558	0	.	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.T10452A	p.G3484G	GGTGTGACCTGTA	.	PASS	Atlas-SNP
SSTR4	6754	hgsc.bcm.edu	37	20	23017082	23017082	+	Missense_Mutation	SNP	T	T	C	rs2567608	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	59	124	0	0.487603	0	T|0.474;C|0.526	0.526	strong	SSTR4,colon,carcinoma,0,1	SSTR4	83	1	NM_001052	exon1	c.T962C	p.F321S	GCCGATTCTTCCA	.	PASS	Atlas-SNP
ZNF880	400713	hgsc.bcm.edu	37	19	52887437	52887437	+	Missense_Mutation	SNP	A	A	C	rs8104812	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	66	128	0	0.507692	0	A|0.655;C|0.345	0.345	strong	.	ZNF880	45	.	NM_001145434	exon4	c.A604C	p.N202H	GCTAACAATCAAG	.	PASS	Atlas-SNP
ACP1	52	hgsc.bcm.edu	37	2	277003	277003	+	Missense_Mutation	SNP	A	A	G	rs79716074	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	84	214	0	0.47191	0	A|0.725;G|0.275	0.275	strong	ACP1_ENST00000272067,NS,carcinoma,+1,4	ACP1	42	4	NM_007099	exon5	c.A317G	p.Q106R	GTAATCAAGTTAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	80	204	0	0.437158	0	C|0.800;T|0.200	0.200	strong	.	MTRF1L	21	.	NM_019041	exon4	c.G640A	p.V214I	TATGGACGCGGCC	.	PASS	Atlas-SNP
KRTAP1-1	81851	hgsc.bcm.edu	37	17	39197549	39197549	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	58	113	2	0.229249	0.0176991	.	.	none	KRTAP1-1,NS,carcinoma,0,7	KRTAP1-1	23	7	NM_030967	exon1	c.C101G	p.S34C	TGGCAGGAGCTGG	.	scavenged	Atlas-SNP
PCSK5	5125	hgsc.bcm.edu	37	9	78638797	78638797	+	Silent	SNP	C	C	T	rs34417623	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	148	71	147	0	0.47973	0	C|0.989;T|0.011	0.011	strong	.	PCSK5	329	.	NM_006200	exon4	c.C555T	p.Y185Y	AAACTACGTGAGT	.	PASS	Atlas-SNP
OR13C9	286362	hgsc.bcm.edu	37	9	107380414	107380414	+	Missense_Mutation	SNP	C	C	A	rs2900373	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	375	185	342	1	0.493333	0.00292398	A|0.365;C|0.635	0.365	strong	.	OR13C9	42	.	NM_001001956	exon1	c.G72T	p.E24D	GAGTAACTCAAGC	.	PASS	Atlas-SNP
LAG3	3902	hgsc.bcm.edu	37	12	6884585	6884585	+	Missense_Mutation	SNP	A	A	T	rs149434241	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	102	184	0	0.472222	0	A|0.994;T|0.006	0.006	strong	.	LAG3	35	.	NM_002286	exon5	c.A928T	p.T310S	CTGGTGACTGGAG	.	PASS	Atlas-SNP
USP36	57602	hgsc.bcm.edu	37	17	76799860	76799860	+	Missense_Mutation	SNP	T	T	C	rs3088040	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	29	50	0	0.426471	0	T|0.442;C|0.558	0.558	strong	.	USP36	243	.	NM_025090	exon16	c.A2417G	p.Q806R	GGGCTCTGGGGGG	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1499899	1499899	+	Silent	SNP	C	C	T	rs732608	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	102	51	85	0	0.5	0	C|0.585;A|0.003	.	strong	TPO,NS,malignant_melanoma,+2,2	TPO	224	2	NM_001206744	exon12	c.C2145T	p.P715P	ATTCCCCGAAGAC	.	PASS	Atlas-SNP
SH3GL1	6455	hgsc.bcm.edu	37	19	4362691	4362691	+	Silent	SNP	G	G	C	rs243261	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	28	78	0	0.4	0	G|0.684;C|0.316	0.316	strong	.	SH3GL1	52	.	NM_003025	exon8	c.C771G	p.P257P	GGGCTTGGGCTTA	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225521101	225521101	+	Missense_Mutation	SNP	G	G	C	rs41268715	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	45	108	0	0.459184	0	G|0.968;C|0.032	0.032	strong	.	DNAH14	300	.	NM_001373	exon64	c.G9694C	p.E3232Q	ACACCAGAATTTC	.	PASS	Atlas-SNP
DENND5B	160518	hgsc.bcm.edu	37	12	31648826	31648826	+	Missense_Mutation	SNP	C	C	T	rs4930979	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	116	136	0	1	0	C|0.605;T|0.395	0.395	strong	.	DENND5B	114	.	NM_144973	exon2	c.G155A	p.R52K	GTTCTTCTCAAAG	.	PASS	Atlas-SNP
REEP1	65055	hgsc.bcm.edu	37	2	86481835	86481835	+	Silent	SNP	C	C	T	rs2276625	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	73	60	0	1	0	C|0.593;T|0.407	0.407	strong	.	REEP1	22	.	NM_001164730	exon4	c.G306A	p.T102T	AGATAGCGTGGGA	.	PASS	Atlas-SNP
HES4	57801	hgsc.bcm.edu	37	1	934951	934951	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	32	29	0	0.64	0	.	.	none	.	HES4	9	.	NM_001142467	exon2	c.A325G	p.M109V	CGGTCATCTCCAG	.	PASS	Atlas-SNP
DTX2	113878	hgsc.bcm.edu	37	7	76111835	76111835	+	Silent	SNP	G	G	A	rs4236506	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	243	114	224	0	0.469136	0	G|0.795;A|0.205	0.205	strong	DTX2,rectum,carcinoma,0,2	DTX2	64	2	NM_001102596	exon2	c.G279A	p.R93R	CATGCGGGCTGTG	.	PASS	Atlas-SNP
SESN1	27244	hgsc.bcm.edu	37	6	109322554	109322554	+	Silent	SNP	C	C	T	rs12214121	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	50	124	0	0.357143	0	C|0.915;T|0.085	0.085	strong	.	SESN1	29	.	NM_014454	exon3	c.G483A	p.Q161Q	ATAGTGCTGAGTT	.	PASS	Atlas-SNP
C22orf26	55267	hgsc.bcm.edu	37	22	46447714	46447714	+	Missense_Mutation	SNP	T	T	C	rs59929908	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	31	49	0	0.484375	0	T|0.897;C|0.103	0.103	strong	.	C22orf26	1	.	NM_018280	exon2	c.A410G	p.Q137R	CATACCTGTAATT	.	PASS	Atlas-SNP
SKA3	221150	hgsc.bcm.edu	37	13	21732060	21732060	+	Splice_Site	SNP	C	C	G	rs151054732		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	11	24	0	0.289474	0	.	.	weak	SKA3_ENST00000400018,NS,carcinoma,0,2	SKA3	76	2	NM_001166017	exon8	c.1119+1G>C	.	AAATAACCTGGAG	.	PASS	Atlas-SNP
BFSP1	631	hgsc.bcm.edu	37	20	17475217	17475217	+	Silent	SNP	C	C	T	rs6136118	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	181	181	165	0	1	0	C|0.697;T|0.303	0.303	strong	.	BFSP1	55	.	NM_001195	exon8	c.G1500A	p.A500A	GTCTTCCGCAACA	.	PASS	Atlas-SNP
ARHGEF28	64283	hgsc.bcm.edu	37	5	73179672	73179672	+	Silent	SNP	C	C	T	rs3749645	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	72	32	60	0	0.444444	0	C|0.820;T|0.180	0.180	strong	.	.	.	.	NM_001080479	exon24	c.C3018T	p.Y1006Y	AAAATACCCTGTC	.	PASS	Atlas-SNP
SLC5A1	6523	hgsc.bcm.edu	37	22	32506104	32506104	+	Silent	SNP	G	G	A	rs33943816	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	116	235	0	0.467742	0	G|0.956;A|0.044	0.044	strong	.	SLC5A1	80	.	NM_000343	exon15	c.G1899A	p.T633T	GATGACGGACACC	.	PASS	Atlas-SNP
GIMAP1	170575	hgsc.bcm.edu	37	7	150417677	150417677	+	Silent	SNP	G	G	A	rs4725358	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	53	86	0	0.630952	0	G|0.926;A|0.074	0.074	strong	GIMAP1,colon,carcinoma,+2,2	GIMAP1	61	2	NM_130759	exon3	c.G585A	p.R195R	CGGCCGGGAGCAG	.	PASS	Atlas-SNP
IFI16	3428	hgsc.bcm.edu	37	1	159002389	159002389	+	Missense_Mutation	SNP	T	T	A	rs1057028	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	77	153	0	0.398964	0	T|0.329;A|0.671	0.671	strong	.	IFI16	111	.	NM_005531	exon7	c.T1237A	p.Y413N	CTTCCATATCCTT	.	PASS	Atlas-SNP
BLNK	29760	hgsc.bcm.edu	37	10	97990583	97990583	+	Silent	SNP	A	A	G	rs727852	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	127	125	0	1	0	A|0.478;G|0.522	0.522	strong	BLNK,NS,carcinoma,0,1	BLNK	46	1	NM_001114094	exon4	c.T171C	p.P57P	GTCAGCAGGGCTC	.	PASS	Atlas-SNP
ZNF467	168544	hgsc.bcm.edu	37	7	149462642	149462642	+	Silent	SNP	G	G	T	rs61742446	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	79	99	0	0.724771	0	G|0.990;T|0.010	0.010	strong	.	ZNF467	50	.	NM_207336	exon5	c.C949A	p.R317R	GGTGCCGCACCAA	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	89988504	89988504	+	Missense_Mutation	SNP	A	A	G	rs2366926	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	224	224	220	0	1	0	A|0.667;G|0.333	0.333	strong	GPR98,NS,carcinoma,0,1	GPR98	605	1	NM_032119	exon32	c.A7034G	p.N2345S	CTGCCAATGATGA	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1538363	1538363	+	Missense_Mutation	SNP	C	C	A	rs1040499	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	233	119	220	0	0.51073	0	C|0.502;A|0.498	0.498	strong	.	PTX4	46	.	NM_001013658	exon1	c.G106T	p.G36C	ACAGGCCCACAGC	.	PASS	Atlas-SNP
BRAT1	221927	hgsc.bcm.edu	37	7	2582878	2582878	+	Missense_Mutation	SNP	T	T	C	rs151317339	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	94	47	82	0	0.5	0	T|1.000;C|0.000	0.000	strong	.	BRAT1	57	.	NM_152743	exon6	c.A883G	p.M295V	GTCCCATGTGGGT	.	PASS	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	37	2	228884299	228884299	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	173	2	173	0	0.0115607	0	.	.	none	SPHKAP_ENST00000392056,NS,carcinoma,-1,2	SPHKAP	750	2	NM_030623	exon7	c.T1271C	p.V424A	CTTCCTACAGAAA	.	scavenged	Atlas-SNP
KRT5	3852	hgsc.bcm.edu	37	12	52908917	52908917	+	Missense_Mutation	SNP	T	T	C	rs11549950	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	26	74	0	0.45614	0	T|0.835;C|0.165	0.165	strong	.	KRT5	88	.	NM_000424	exon9	c.A1582G	p.S528G	CACTGCTACCTCC	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97864334	97864334	+	Silent	SNP	C	C	T	rs56835800	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	96	45	0	1	0	C|0.257;T|0.743	0.743	strong	.	ANKRD36	170	.	NM_001164315	exon44	c.C2694T	p.A898A	AAGTGCCGAGAAA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	40	82	0	0.506329	0	T|0.536;C|0.464	0.464	strong	.	FLNB	430	.	NM_001457	exon6	c.T927C	p.S309S	TGACAGTGACAAG	.	PASS	Atlas-SNP
TBC1D29	26083	hgsc.bcm.edu	37	17	28890301	28890301	+	Missense_Mutation	SNP	G	G	A	rs80145926	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	6	121	2	0.0444444	0.0165289	G|0.928;A|0.072	0.072	strong	TBC1D29,NS,carcinoma,0,1	TBC1D29	19	1	NM_015594	exon5	c.G311A	p.S104N	AGAGCAGCAGAGG	.	scavenged	Atlas-SNP
GP5	2814	hgsc.bcm.edu	37	3	194118565	194118565	+	Silent	SNP	C	C	T	rs71316299	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	15	52	0	0.375	0	C|0.969;T|0.031	0.031	strong	.	GP5	106	.	NM_004488	exon2	c.G447A	p.Q149Q	GAGCTCCTGCAGG	.	PASS	Atlas-SNP
GSG1L	146395	hgsc.bcm.edu	37	16	27974487	27974487	+	Silent	SNP	T	T	C	rs2051743	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	66	141	0	0.481752	0	T|0.424;C|0.576	0.576	strong	.	GSG1L	82	.	NM_001109763	exon2	c.A387G	p.A129A	CTCCGATGCCGGG	.	PASS	Atlas-SNP
MTMR9	66036	hgsc.bcm.edu	37	8	11162496	11162496	+	Silent	SNP	A	A	C	rs2164272	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	66	117	0	0.515625	0	A|0.640;C|0.360	0.360	strong	.	MTMR9	58	.	NM_015458	exon4	c.A564C	p.L188L	AGTACTAAGCTAT	.	PASS	Atlas-SNP
FKBP5	2289	hgsc.bcm.edu	37	6	35544942	35544942	+	Silent	SNP	G	G	A	rs34866878	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	82	198	0	0.398058	0	G|0.928;A|0.072	0.072	strong	.	FKBP5	64	.	NM_001145775	exon11	c.C1095T	p.N365N	AAACTCGTTCATG	.	PASS	Atlas-SNP
TRIM66	9866	hgsc.bcm.edu	37	11	8671369	8671369	+	Silent	SNP	C	C	T	rs10840101	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	51	99	0	0.520408	0	C|0.817;T|0.183	0.183	strong	.	TRIM66	45	.	NM_014818	exon3	c.G75A	p.L25L	GCTGCACAGCCAG	.	PASS	Atlas-SNP
ATP13A2	23400	hgsc.bcm.edu	37	1	17314942	17314942	+	Silent	SNP	G	G	A	rs9435662	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	69	128	0	0.530769	0	G|0.606;A|0.394	0.394	strong	.	ATP13A2	85	.	NM_022089	exon24	c.C2637T	p.G879G	ATTGGCGCCGTCT	.	PASS	Atlas-SNP
HABP2	3026	hgsc.bcm.edu	37	10	115348046	115348046	+	Missense_Mutation	SNP	G	G	A	rs7080536	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	48	113	0	0.417391	0	G|0.979;A|0.021	0.021	strong	.	HABP2	52	.	NM_004132	exon13	c.G1601A	p.G534E	AGTGTGGGAAGAG	.	PASS	Atlas-SNP
RAB11FIP1	80223	hgsc.bcm.edu	37	8	37730456	37730456	+	Missense_Mutation	SNP	G	G	T	rs7341564	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	146	65	108	0	0.445205	0	G|0.643;N|0.001	.	strong	.	RAB11FIP1	105	.	NM_001002814	exon4	c.C1864A	p.Q622K	TGGCCTGGCCCCT	.	PASS	Atlas-SNP
GP2	2813	hgsc.bcm.edu	37	16	20328685	20328685	+	Silent	SNP	T	T	C	rs1129818	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	77	77	103	0	1	0	T|0.687;C|0.313	0.313	strong	.	GP2	122	.	NM_001007240	exon9	c.A1275G	p.Q425Q	ATCACGTTGATTT	.	PASS	Atlas-SNP
PCDHAC2	56134	hgsc.bcm.edu	37	5	140347053	140347053	+	Silent	SNP	C	C	T	rs155807	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	140	44	136	0	0.314286	0	C|0.679;T|0.321	0.321	strong	.	PCDHAC2	142	.	NM_031883	exon1	c.C702T	p.I234I	GGGCATCCCAGCC	.	PASS	Atlas-SNP
SYNPO2	171024	hgsc.bcm.edu	37	4	119947985	119947985	+	Missense_Mutation	SNP	G	G	C	rs12645298	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	50	92	0	0.431034	0	G|0.768;C|0.232	0.232	strong	.	SYNPO2	353	.	NM_001128934	exon3	c.G461C	p.G154A	GTGCAGGCAGCTT	.	PASS	Atlas-SNP
DOM3Z	1797	hgsc.bcm.edu	37	6	31938451	31938451	+	Silent	SNP	T	T	C	rs35337578	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	79	105	0	0.622047	0	T|0.893;C|0.107	0.107	strong	.	DOM3Z	20	.	NM_005510	exon4	c.A744G	p.P248P	GCAGGTTGGGGGC	.	PASS	Atlas-SNP
TMEM88B	643965	hgsc.bcm.edu	37	1	1361530	1361530	+	Missense_Mutation	SNP	C	C	T	rs144957058	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	54	143	0	0.534653	0	C|0.978;T|0.022	0.022	strong	.	.	.	.	NM_001146685	exon1	c.C23T	p.T8M	GGGAGACGGAGGA	.	PASS	Atlas-SNP
GP6	51206	hgsc.bcm.edu	37	19	55539094	55539094	+	Silent	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	50	98	0	0.543478	0	.	.	none	.	GP6	55	.	NM_016363	exon4	c.C462T	p.Y154Y	ATTCTTGTAGGGC	.	PASS	Atlas-SNP
PMEL	6490	hgsc.bcm.edu	37	12	56348028	56348028	+	Silent	SNP	G	G	A	rs1052206	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	68	33	73	0	0.485294	0	G|0.272;A|0.728	0.728	strong	.	PMEL	60	.	NM_001200054	exon11	c.C1977T	p.N659N	GGGGCTGTTCTCA	.	PASS	Atlas-SNP
C11orf16	56673	hgsc.bcm.edu	37	11	8948680	8948680	+	Silent	SNP	A	A	T	rs3751065	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	53	82	0	0.535354	0	A|0.472;T|0.528	0.528	strong	.	C11orf16	43	.	NM_020643	exon4	c.T366A	p.P122P	GACAAGAGGAGCC	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388635	1388635	+	Silent	SNP	T	T	C	rs74518227	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	133	83	239	0	0.62406	0	T|0.937;C|0.063	0.063	strong	CRIPAK,rectum,carcinoma,0,4	CRIPAK	185	4	NM_175918	exon1	c.T336C	p.C112C	CCCATGTGGAGTG	.	PASS	Atlas-SNP
TBC1D26	353149	hgsc.bcm.edu	37	17	15644506	15644506	+	Missense_Mutation	SNP	C	C	T	rs11650318	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	60	56	0	1	0	C|0.723;T|0.277	0.277	strong	.	TBC1D26	16	.	NM_178571	exon10	c.C617T	p.A206V	AAGATGCTTTCTG	.	PASS	Atlas-SNP
SEZ6L	23544	hgsc.bcm.edu	37	22	26688838	26688838	+	Silent	SNP	C	C	T	rs17304075	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	116	59	104	0	0.508621	0	C|0.919;T|0.081	0.081	strong	SEZ6L,NS,carcinoma,+2,1	SEZ6L	174	1	NM_001184777	exon2	c.C561T	p.D187D	GCTGGACCGAAAG	.	PASS	Atlas-SNP
CCNT1	904	hgsc.bcm.edu	37	12	49086963	49086963	+	Silent	SNP	G	G	A	rs3741632	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	216	216	185	0	1	0	G|0.434;A|0.566	0.566	strong	.	CCNT1	55	.	NM_001240	exon9	c.C2034T	p.P678P	TGCAGTGGGCTGA	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092553	1092553	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	312	14	312	6	0.0448718	0.0192308	.	.	none	MUC2_ENST00000441003,extremity,malignant_melanoma,-1,2	MUC2	614	2	NM_002457	exon30	c.A4372C	p.I1458L	CCTCCAATAAGCA	.	scavenged	Atlas-SNP
PXK	54899	hgsc.bcm.edu	37	3	58382846	58382846	+	Silent	SNP	C	C	T	rs3191903	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	76	159	0	0.490323	0	C|0.701;T|0.299	0.299	strong	.	PXK	89	.	NM_017771	exon10	c.C903T	p.C301C	CACTTGCCGGCTG	.	PASS	Atlas-SNP
GNPTG	84572	hgsc.bcm.edu	37	16	1411894	1411894	+	Silent	SNP	G	G	A	rs76594024	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	42	64	0	0.552632	0	G|0.994;A|0.006	0.006	strong	.	GNPTG	18	.	NM_032520	exon5	c.G255A	p.P85P	CTGCCCGTTCCAC	.	PASS	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	37	20	33586674	33586674	+	Silent	SNP	C	C	T	rs377482062		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	121	50	131	0	0.413223	0	.	.	weak	.	MYH7B	145	.	NM_020884	exon35	c.C4272T	p.Y1424Y	CAAGTACGAAGCA	.	PASS	Atlas-SNP
BAD	572	hgsc.bcm.edu	37	11	64051823	64051823	+	Silent	SNP	C	C	T	rs34882006	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	50	23	55	0	0.46	0	C|0.978;T|0.022	0.022	strong	.	BAD	8	.	NM_032989	exon2	c.G18A	p.E6E	CTCAAACTCTGGG	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15818141	15818141	+	Silent	SNP	A	A	C	rs2075511	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	77	191	0	0.450292	0	A|0.589;C|0.411	0.411	strong	.	MYH11	520	.	NM_001040114	exon32	c.T4263G	p.A1421A	ATCATAAGCGGCC	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	216258213	216258213	+	Missense_Mutation	SNP	A	A	G	rs56222536	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	50	65	0	0.5	0	A|0.892;G|0.108	0.108	strong	.	USH2A	1168	.	NM_206933	exon25	c.T4994C	p.I1665T	TTTTGGATTATCT	.	PASS	Atlas-SNP
ST6GAL1	6480	hgsc.bcm.edu	37	3	186760591	186760591	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	189	20	174	0	0.10582	0	.	.	none	.	ST6GAL1	36	.	NM_003032	exon3	c.T100A	p.Y34N	GGGAGTTACTATG	.	PASS	Atlas-SNP
ACSBG2	81616	hgsc.bcm.edu	37	19	6183233	6183233	+	Silent	SNP	G	G	A	rs17851957	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	76	149	0	0.517007	0	G|0.919;A|0.081	0.081	strong	.	ACSBG2	83	.	NM_030924	exon10	c.G1272A	p.E424E	GAGTGAGAGCTCG	.	PASS	Atlas-SNP
CCDC151	115948	hgsc.bcm.edu	37	19	11545690	11545690	+	Missense_Mutation	SNP	G	G	A	rs143295007	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	39	88	0	0.453488	0	G|0.997;A|0.003	0.003	strong	.	CCDC151	44	.	NM_145045	exon1	c.C148T	p.P50S	GGCCTGGGGTCCA	.	PASS	Atlas-SNP
PCDHAC1	56135	hgsc.bcm.edu	37	5	140307746	140307746	+	Silent	SNP	C	C	G	rs155820	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	21	67	0	0.411765	0	C|0.680;G|0.320	0.320	strong	.	PCDHAC1	141	.	NM_031882	exon1	c.C1269G	p.P423P	CTCACCCCCACTT	.	PASS	Atlas-SNP
KRT7	3855	hgsc.bcm.edu	37	12	52635360	52635360	+	Silent	SNP	G	G	A	rs999665	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	127	102	0	0.992188	0	G|0.514;A|0.486	0.486	strong	KRT7,NS,carcinoma,0,1	KRT7	48	1	NM_005556	exon5	c.G798A	p.A266A	CAAGGCGCAGTAT	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42162467	42162467	+	Nonsense_Mutation	SNP	G	G	A	rs61750839	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	70	93	0	0.636364	0	G|0.982;A|0.018	0.018	strong	.	SPTBN5	171	.	NM_016642	exon31	c.C5542T	p.R1848X	GTTCTCGCTCCAG	.	PASS	Atlas-SNP
CMKLR1	1240	hgsc.bcm.edu	37	12	108686549	108686549	+	Missense_Mutation	SNP	A	A	G	rs192034694	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	183	101	159	1	0.551913	0.00628931	A|0.996;G|0.004	0.004	strong	CMKLR1,NS,chondrosarcoma,0,1	CMKLR1	67	1	NM_001142344	exon3	c.T191C	p.I64T	GTGGCAATGATGA	.	scavenged	Atlas-SNP
ADCY6	112	hgsc.bcm.edu	37	12	49177113	49177113	+	Silent	SNP	T	T	G	rs2453486	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	48	83	1	0.45283	0.0120482	T|0.723;G|0.277	0.277	strong	ADCY6,NS,carcinoma,0,1	ADCY6	81	1	NM_020983	exon2	c.A105C	p.A35A	GCCACCTGCCCGA	.	scavenged	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	37	1	86913265	86913265	+	Silent	SNP	C	C	T	rs2275001	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	63	137	0	0.583333	0	C|0.765;T|0.235	0.235	strong	.	CLCA2	102	.	NM_006536	exon11	c.C1788T	p.R596R	CTCTCGCGCCTCC	.	PASS	Atlas-SNP
ARHGEF25	115557	hgsc.bcm.edu	37	12	58010163	58010163	+	Missense_Mutation	SNP	A	A	G	rs1564374	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	41	62	0	0.594203	0	A|0.402;G|0.598;T|0.000	0.598	strong	.	ARHGEF25	111	.	NM_001111270	exon15	c.A1634G	p.Q545R	GAATTCAGCTTGG	.	PASS	Atlas-SNP
ARGFX	503582	hgsc.bcm.edu	37	3	121305071	121305071	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	213	4	175	0	0.0187793	0	.	.	none	ARGFX,caecum,carcinoma,+1,3	ARGFX	36	3	NM_001012659	exon5	c.G572T	p.W191L	GGGCATGGAACTC	.	scavenged	Atlas-SNP
ANXA13	312	hgsc.bcm.edu	37	8	124710729	124710729	+	Missense_Mutation	SNP	C	C	T	rs2294013	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	146	153	0	0.993197	0	C|0.733;T|0.267	0.267	strong	.	ANXA13	38	.	NM_001003954	exon5	c.G380A	p.R127H	CTGGGACGGTCCA	.	PASS	Atlas-SNP
SLC11A2	4891	hgsc.bcm.edu	37	12	51386066	51386066	+	Silent	SNP	A	A	G	rs1048230	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	57	92	0	0.581633	0	A|0.856;G|0.144	0.144	strong	.	SLC11A2	51	.	NM_001174125	exon13	c.T1341C	p.I447I	GATGGCAATAGAG	.	PASS	Atlas-SNP
OR8G2	26492	hgsc.bcm.edu	37	11	124095414	124095414	+	Missense_Mutation	SNP	C	C	G	rs10893172	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	64	107	0	0.64	0	C|0.606;G|0.394	0.394	strong	.	.	.	.	NM_001007249	exon1	c.C17G	p.S6C	TTTCCTCCGTAGA	.	PASS	Atlas-SNP
HELLS	3070	hgsc.bcm.edu	37	10	96313960	96313960	+	Silent	SNP	A	A	C	rs11188019	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	206	94	212	0	0.456311	0	A|0.531;C|0.469	0.469	strong	.	HELLS	63	.	NM_018063	exon3	c.A231C	p.I77I	CAATATATACTCC	.	PASS	Atlas-SNP
DMXL1	1657	hgsc.bcm.edu	37	5	118484804	118484804	+	Silent	SNP	G	G	A	rs7734532	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	95	194	0	0.479798	0	G|0.471;A|0.529	0.529	strong	.	DMXL1	268	.	NM_005509	exon18	c.G3282A	p.E1094E	CCTTGAGCAGACA	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56202768	56202768	+	Missense_Mutation	SNP	C	C	A	rs3809983	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	197	87	176	0	0.441624	0	C|0.609;N|0.000	.	strong	.	ALPK2	487	.	NM_052947	exon5	c.G4651T	p.A1551S	GAGAAGCGTGAGT	.	PASS	Atlas-SNP
LRRC8A	56262	hgsc.bcm.edu	37	9	131670217	131670217	+	Silent	SNP	C	C	T	rs41275930	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	67	134	0	0.455782	0	C|0.991;T|0.009	0.009	strong	.	LRRC8A	69	.	NM_001127244	exon3	c.C774T	p.D258D	GGGGGACATTGTG	.	PASS	Atlas-SNP
NLRP12	91662	hgsc.bcm.edu	37	19	54307322	54307322	+	Silent	SNP	G	G	A	rs12460528	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	142	160	0	1	0	A|0.488;G|0.496;T|0.016	0.488	strong	.	NLRP12	236	.	NM_144687	exon6	c.C2469T	p.N823N	GGTGCCGAGCACA	.	PASS	Atlas-SNP
TREML4	285852	hgsc.bcm.edu	37	6	41197857	41197857	+	Missense_Mutation	SNP	C	C	T	rs7769759	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	136	136	104	0	1	0	C|0.306;T|0.694	0.694	strong	.	TREML4	25	.	NM_198153	exon4	c.C503T	p.T168I	CTGAGACCAGGTA	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	37	9	133760106	133760106	+	Missense_Mutation	SNP	C	C	T	rs2229071	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	42	74	0	0.567568	0	C|0.995;T|0.005	0.005	strong	.	ABL1	1632	.	NM_007313	exon11	c.C2486T	p.P829L	CCAGCCCGCCCAA	.	PASS	Atlas-SNP
TCOF1	6949	hgsc.bcm.edu	37	5	149776232	149776232	+	Missense_Mutation	SNP	C	C	T	rs15251	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	71	124	0	0.63964	0	C|0.790;T|0.210	0.210	strong	.	TCOF1	154	.	NM_001135243	exon24	c.C4169T	p.A1390V	GGAAAGCAAAGAG	.	PASS	Atlas-SNP
OR1I1	126370	hgsc.bcm.edu	37	19	15198666	15198666	+	Missense_Mutation	SNP	T	T	A	rs144766527	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	54	112	0	0.409091	0	T|0.989;A|0.011	0.011	strong	OR1I1,NS,malignant_melanoma,-1,1	OR1I1	58	1	NM_001004713	exon1	c.T790A	p.S264T	CCCACATCCCCCA	.	PASS	Atlas-SNP
NLRP10	338322	hgsc.bcm.edu	37	11	7982094	7982094	+	Silent	SNP	G	G	A	rs12363522	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	58	109	0	0.487395	0	G|0.958;A|0.042	0.042	strong	NLRP10,NS,carcinoma,-1,2	NLRP10	146	2	NM_176821	exon2	c.C1065T	p.G355G	GCAAATGCCTGGA	.	PASS	Atlas-SNP
PER1	5187	hgsc.bcm.edu	37	17	8046664	8046664	+	Missense_Mutation	SNP	C	C	T	rs112474322	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	39	152	0	0.39	0	C|0.980;T|0.020	0.020	strong	.	PER1	104	.	NM_002616	exon19	c.G2992A	p.A998T	CAGCAGCCCCCTC	.	PASS	Atlas-SNP
TFAP2B	7021	hgsc.bcm.edu	37	6	50791444	50791444	+	Missense_Mutation	SNP	G	G	C	rs139904414		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	34	21	52	0	0.617647	0	G|1.000;C|0.000	0.000	weak	.	TFAP2B	91	.	NM_003221	exon2	c.G406C	p.D136H	GGCCTTGACCCCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	101	45	84	0	0.445545	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
PNPLA5	150379	hgsc.bcm.edu	37	22	44282307	44282307	+	Silent	SNP	G	G	A	rs739232	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	24	53	0	0.347826	0	G|0.598;A|0.402	0.402	strong	.	PNPLA5	46	.	NM_138814	exon6	c.C825T	p.D275D	GTTTCCGTCAGCC	.	PASS	Atlas-SNP
CCDC50	152137	hgsc.bcm.edu	37	3	191075902	191075902	+	Silent	SNP	C	C	T	rs11542549	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	82	142	0	0.577465	0	C|0.584;A|0.042	.	strong	.	CCDC50	39	.	NM_174908	exon3	c.C228T	p.R76R	GAAGCGCTACAAA	.	PASS	Atlas-SNP
SLC6A7	6534	hgsc.bcm.edu	37	5	149583300	149583300	+	Silent	SNP	T	T	C	rs2240793	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	276	276	277	1	1	0.00361011	T|0.321;C|0.679	0.679	strong	.	SLC6A7	52	.	NM_014228	exon9	c.T1158C	p.F386F	GTCCTTTCTCTTC	.	PASS	Atlas-SNP
EYA1	2138	hgsc.bcm.edu	37	8	72111599	72111599	+	Silent	SNP	A	A	G	rs10103397	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	57	23	45	0	0.403509	0	A|0.620;G|0.380	0.380	strong	.	EYA1	108	.	NM_000503	exon18	c.T1755C	p.H585H	CAAGGCATGGTGC	.	PASS	Atlas-SNP
OR4N2	390429	hgsc.bcm.edu	37	14	20295778	20295778	+	Silent	SNP	C	C	A	rs11621883	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	294	135	361	1	0.459184	0.00277008	A|0.114;C|0.886;T|0.000	0.114	strong	.	OR4N2	125	.	NM_001004723	exon1	c.C171A	p.A57A	CACAGCCCCCCTC	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121513561	121513561	+	Missense_Mutation	SNP	T	T	G	rs740965	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	29	79	0	0.460317	0	T|0.868;G|0.132	0.132	strong	.	PTPRZ1	605	.	NM_001206838	exon1	c.T8G	p.I3S	TGCGAATCCTAAA	.	PASS	Atlas-SNP
DPP6	1804	hgsc.bcm.edu	37	7	154667643	154667643	+	Silent	SNP	G	G	A	rs2230064	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	60	97	0	0.6	0	G|0.805;A|0.195	0.195	strong	.	DPP6	383	.	NM_130797	exon20	c.G1911A	p.V637V	GAGTGTGGCTGAG	.	PASS	Atlas-SNP
TRAPPC11	60684	hgsc.bcm.edu	37	4	184615117	184615117	+	Missense_Mutation	SNP	A	A	C	rs62358032	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	99	161	0	0.529412	0	A|0.924;C|0.076	0.076	strong	.	.	.	.	NM_021942	exon22	c.A2434C	p.T812P	CATGGAACAGAAC	.	PASS	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	37	9	115931692	115931692	+	Silent	SNP	A	A	G	rs3810909	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	250	123	224	0	0.492	0	A|0.798;G|0.202	0.202	strong	FKBP15_ENST00000238256,NS,carcinoma,0,1	FKBP15	128	1	NM_015258	exon26	c.T3297C	p.T1099T	GTCTGAAGTCAGG	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859879	144859879	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	307	27	242	0	0.0879479	0	.	.	none	.	PDE4DIP	817	.	NM_014644	exon38	c.C6205T	p.R2069X	GCAGTCGCAGACA	.	PASS	Atlas-SNP
LONP1	9361	hgsc.bcm.edu	37	19	5696146	5696146	+	Silent	SNP	G	G	A	rs3745624	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	51	16	90	0	0.313726	0	G|0.776;A|0.224	0.224	strong	.	LONP1	66	.	NM_004793	exon13	c.G1932T	p.V644V	GGGGATGGTGTCC	.	PASS	Atlas-SNP
SEMG2	6407	hgsc.bcm.edu	37	20	43850400	43850400	+	Missense_Mutation	SNP	C	C	A	rs2233896	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	125	212	2	0.496032	0.00943396	C|0.876;A|0.124	0.124	strong	SEMG2,caecum,carcinoma,0,1	SEMG2	92	1	NM_003008	exon2	c.C127A	p.Q43K	CATGGACAAAAGG	.	scavenged	Atlas-SNP
TNIK	23043	hgsc.bcm.edu	37	3	170825920	170825920	+	Silent	SNP	G	G	A	rs2291900	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	80	80	84	0	1	0	G|0.792;A|0.208	0.208	strong	TNIK_ENST00000436636,NS,carcinoma,0,3	TNIK	313	3	NM_015028	exon20	c.C2316T	p.L772L	ATGGGGGAGCACA	.	PASS	Atlas-SNP
APLF	200558	hgsc.bcm.edu	37	2	68729931	68729931	+	Silent	SNP	A	A	G	rs112136813	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	127	59	135	0	0.464567	0	A|0.972;G|0.028	0.028	strong	.	APLF	69	.	NM_173545	exon3	c.A237G	p.L79L	AAATCTATGGTGC	.	PASS	Atlas-SNP
SKA3	221150	hgsc.bcm.edu	37	13	21742311	21742311	+	Missense_Mutation	SNP	C	C	T	rs61950353	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	813	268	479	1	0.329643	0.00208768	C|0.893;T|0.107	0.107	strong	.	SKA3	76	.	NM_145061	exon4	c.G559A	p.V187I	CAATTACGGGCTC	.	PASS	Atlas-SNP
FLII	2314	hgsc.bcm.edu	37	17	18148485	18148485	+	Silent	SNP	G	G	A	rs7498	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	128	62	113	0	0.484375	0	G|0.728;A|0.272	0.272	strong	.	FLII	79	.	NM_002018	exon30	c.C3777T	p.H1259H	CCAGGCGTGGAAG	.	PASS	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	37	2	109382170	109382170	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	644	12	611	8	0.0186335	0.0130933	.	.	none	RANBP2_ENST00000283195,NS,carcinoma,0,6	RANBP2	488	6	NM_006267	exon20	c.A5175G	p.E1725E	GAAGGAAGGACAG	.	scavenged	Atlas-SNP
ZNF407	55628	hgsc.bcm.edu	37	18	72776121	72776121	+	Silent	SNP	G	G	A	rs3744913	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	86	90	0	0.988506	0	G|0.221;A|0.779	0.779	strong	.	ZNF407	231	.	NM_017757	exon8	c.G6444A	p.T2148T	CGTGACGGAGGAG	.	PASS	Atlas-SNP
TMEM70	54968	hgsc.bcm.edu	37	8	74893821	74893821	+	Missense_Mutation	SNP	A	A	G	rs1053079	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	28	57	0	0.583333	0	A|0.767;G|0.233	0.233	strong	.	TMEM70	12	.	NM_017866	exon3	c.A748G	p.T250A	GAAGAAACCAGTG	.	PASS	Atlas-SNP
PKD1L1	168507	hgsc.bcm.edu	37	7	47879049	47879049	+	Missense_Mutation	SNP	G	G	A	rs76100363	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	81	114	0	0.522581	0	G|0.859;A|0.141	0.141	strong	PKD1L1,NS,carcinoma,0,1	PKD1L1	328	1	NM_138295	exon36	c.C5764T	p.R1922W	CCTTCCGGAAGCC	.	PASS	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	37	14	23869993	23869993	+	Silent	SNP	G	G	A	rs61731179	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	348	162	272	0	0.465517	0	G|0.960;A|0.040	0.040	strong	.	MYH6	274	.	NM_002471	exon13	c.C1335T	p.N445N	GGTGGCGTTGATG	.	PASS	Atlas-SNP
IVD	3712	hgsc.bcm.edu	37	15	40705225	40705225	+	Silent	SNP	C	C	T	rs2229312	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	59	120	0	0.472	0	C|0.887;T|0.113	0.113	strong	.	IVD	29	.	NM_002225	exon7	c.C732T	p.D244D	GCTGGACAAGCTG	.	PASS	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50745779	50745779	+	Silent	SNP	C	C	A	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	266	60	172	0	0.225564	0	.	.	none	FAM186A_ENST00000327337,NS,carcinoma,0,1	FAM186A	181	1	NM_001145475	exon4	c.G4836T	p.G1612G	AGGGATCCCCTGA	.	PASS	Atlas-SNP
ZNF45	7596	hgsc.bcm.edu	37	19	44418077	44418077	+	Missense_Mutation	SNP	C	C	T	rs407731	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	60	101	0	0.5	0	C|0.480;T|0.520	0.520	strong	.	ZNF45	51	.	NM_003425	exon10	c.G1511A	p.R504K	CCACACCTCTCGC	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15811062	15811062	+	Silent	SNP	C	C	T	rs1050162	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	66	118	1	0.532258	0.00847458	C|0.596;T|0.404	0.404	strong	MYH11_ENST00000396324,NS,neuroblastoma,-1,2	MYH11	520	2	NM_001040114	exon39	c.G5460A	p.K1820K	GGTGGACTTGAAC	.	scavenged	Atlas-SNP
MLH1	4292	hgsc.bcm.edu	37	3	37089130	37089130	+	Missense_Mutation	SNP	A	A	G	rs35502531	bycluster;alternate_allele	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	80	131	1	0.597015	0.00763359	.	.	alt	MLH1,colon,carcinoma,-1,5	MLH1	226	5	NM_000249	exon16	c.A1852G	p.K618E	AAGAAGAAGGCTG	.	scavenged	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	37	17	4446217	4446217	+	Silent	SNP	C	C	T	rs138864176	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	49	116	0	0.510417	0	C|0.997;T|0.003	0.003	strong	.	MYBBP1A	69	.	NM_014520	exon20	c.G2883A	p.T961T	CGGGCCCGTGGGC	.	PASS	Atlas-SNP
GMEB2	26205	hgsc.bcm.edu	37	20	62236148	62236148	+	Silent	SNP	T	T	C	rs6090471	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	73	64	0	0.986486	0	T|0.254;C|0.746	0.746	strong	.	GMEB2	44	.	NM_012384	exon3	c.A177G	p.A59A	AGCTGCTGCCGCT	.	PASS	Atlas-SNP
WDR11	55717	hgsc.bcm.edu	37	10	122666320	122666320	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	3	243	0	0.0117188	0	.	.	none	WDR11,NS,haematopoietic_neoplasm,+1,1	WDR11	95	1	NM_018117	exon28	c.T3470C	p.V1157A	TATTTGTGGAAGC	.	scavenged	Atlas-SNP
CMPK2	129607	hgsc.bcm.edu	37	2	6990020	6990020	+	Silent	SNP	C	C	T	rs10495545	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	43	102	0	0.488636	0	C|0.876;N|0.001	.	strong	.	CMPK2	30	.	NM_207315	exon5	c.G1311A	p.T437T	TAATACCGTCTGC	.	PASS	Atlas-SNP
CEP57	9702	hgsc.bcm.edu	37	11	95564259	95564259	+	Missense_Mutation	SNP	A	A	G	rs644799	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	163	154	0	0.993902	0	T|0.005;G|0.275;C|0.007;N|0.000;A|0.713	0.275	strong	CEP57,colon,carcinoma,0,1	CEP57	40	1	NM_014679	exon11	c.A1342G	p.R448G	GAAGAAAGAAACA	.	PASS	Atlas-SNP
ATP8	0	hgsc.bcm.edu	37	MT	8448	8448	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	7	7	2	0	1	0	.	.	none	.	.	.	.	ENST00000361851	exon1	c.T83C	p.M28T	TAAAAATATTAAA	.	PASS	Atlas-SNP
C2CD3	26005	hgsc.bcm.edu	37	11	73785326	73785326	+	Silent	SNP	T	T	C	rs4453265	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	162	161	158	0	0.993827	0	T|0.543;C|0.457	0.457	strong	.	C2CD3	288	.	NM_015531	exon24	c.A4923G	p.V1641V	TCTTTCTACTAGG	.	PASS	Atlas-SNP
PRKRA	8575	hgsc.bcm.edu	37	2	179315757	179315757	+	Missense_Mutation	SNP	T	T	G	rs9406386	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	37	13	27	0	0.351351	0	T|0.825;G|0.175	0.175	strong	.	PRKRA	56	.	NM_003690	exon1	c.A1C	p.M1L	GGGACATGGCGAG	.	PASS	Atlas-SNP
MTRF1L	54516	hgsc.bcm.edu	37	6	153316326	153316326	+	Silent	SNP	A	A	G	rs3734467	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	306	150	292	0	0.490196	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
PLA2G2A	5320	hgsc.bcm.edu	37	1	20304962	20304962	+	Silent	SNP	C	C	G	rs2236771	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	36	12	50	0	0.333333	0	C|0.904;G|0.096	0.096	strong	.	PLA2G2A	14	.	NM_001161729	exon3	c.G96C	p.T32T	TCCTGTCGTCAAC	.	PASS	Atlas-SNP
MAD2L1	4085	hgsc.bcm.edu	37	4	120981323	120981323	+	Missense_Mutation	SNP	T	T	C	rs61752608	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	111	58	107	0	0.522523	0	T|0.997;C|0.003	0.003	strong	.	MAD2L1	17	.	NM_002358	exon5	c.A568G	p.I190V	TGTGGATTGTAGT	.	PASS	Atlas-SNP
AMACR	23600	hgsc.bcm.edu	37	5	34004707	34004707	+	Missense_Mutation	SNP	C	C	T	rs10941112	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	366	363	367	0	0.991803	0	C|0.655;T|0.345	0.345	strong	.	AMACR	38	.	NM_014324	exon3	c.G524A	p.G175D	CCCTTGCCAGTGC	.	PASS	Atlas-SNP
ZBED4	9889	hgsc.bcm.edu	37	22	50278642	50278642	+	Silent	SNP	C	C	T	rs910800	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	39	50	0	0.975	0	C|0.380;T|0.620	0.620	strong	.	ZBED4	102	.	NM_014838	exon2	c.C1332T	p.G444G	ATCTGGCGCCATC	.	PASS	Atlas-SNP
ZFP28	140612	hgsc.bcm.edu	37	19	57065189	57065189	+	Silent	SNP	T	T	C	rs145011	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	57	106	0	0.467213	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
TMEM176B	28959	hgsc.bcm.edu	37	7	150490238	150490238	+	Missense_Mutation	SNP	G	G	A	rs17256042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	102	222	1	0.465753	0.0045045	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	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29912149	29912149	+	Silent	SNP	G	G	C	rs114818671	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	477	134	341	0	0.280922	0	G|0.960;C|0.040	0.040	strong	.	HLA-A	89	.	NM_001242758	exon4	c.G870C	p.L290L	GGGTCTGCCCAAG	.	PASS	Atlas-SNP
FAM69B	138311	hgsc.bcm.edu	37	9	139617836	139617836	+	Silent	SNP	C	C	T	rs6874	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	46	22	44	0	0.478261	0	C|0.915;T|0.085	0.085	strong	.	FAM69B	22	.	NM_152421	exon5	c.C906T	p.N302N	GGCCAACGTGGGC	.	PASS	Atlas-SNP
KHNYN	23351	hgsc.bcm.edu	37	14	24901992	24901992	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	2	134	0	0.017094	0	.	.	none	KHNYN,NS,adenocarcinoma,0,1	KHNYN	46	1	NM_015299	exon4	c.C1414T	p.R472C	TGGGACCGTGGTC	.	scavenged	Atlas-SNP
TARSL2	123283	hgsc.bcm.edu	37	15	102264476	102264476	+	Missense_Mutation	SNP	C	C	A	rs1143136	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	21	11	21	0	0.52381	0	C|0.794;A|0.206	0.206	strong	.	TARSL2	63	.	NM_152334	exon1	c.G115T	p.A39S	AGGGCGCGTTCAG	.	PASS	Atlas-SNP
MAPK1IP1L	93487	hgsc.bcm.edu	37	14	55529860	55529860	+	Silent	SNP	A	A	G	rs17851309	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	153	72	170	0	0.470588	0	A|0.960;G|0.040	0.040	strong	.	MAPK1IP1L	14	.	NM_144578	exon3	c.A543G	p.Q181Q	TCCCCAAGCCCCT	.	PASS	Atlas-SNP
ARHGAP32	9743	hgsc.bcm.edu	37	11	128839526	128839526	+	Missense_Mutation	SNP	C	C	G	rs60847789	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	30	65	0	0.517241	0	C|0.902;G|0.098	0.098	strong	.	ARHGAP32	307	.	NM_001142685	exon22	c.G5540C	p.S1847T	TGCGTGCTACCAT	.	PASS	Atlas-SNP
FAM92B	339145	hgsc.bcm.edu	37	16	85141661	85141661	+	Silent	SNP	G	G	A	rs17200833	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	89	43	94	0	0.483146	0	G|0.904;A|0.096	0.096	strong	.	FAM92B	29	.	NM_198491	exon3	c.C300T	p.Y100Y	TGCCCCGTAGAGC	.	PASS	Atlas-SNP
AQP12B	653437	hgsc.bcm.edu	37	2	241621869	241621869	+	Missense_Mutation	SNP	G	G	A	rs74882485	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	27	9	96	2	0.333333	0.0208333	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
TPTE	7179	hgsc.bcm.edu	37	21	10910340	10910340	+	Silent	SNP	C	C	G	rs62211191	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	368	117	186	0	0.317935	0	C|0.846;G|0.154	0.154	strong	.	TPTE	513	.	NM_199261	exon22	c.G1416C	p.L472L	ATCATACAGAGGT	.	PASS	Atlas-SNP
ZNF80	7634	hgsc.bcm.edu	37	3	113955187	113955187	+	Nonsense_Mutation	SNP	A	A	C	rs3732781	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	113	95	0	0.991228	0	C|0.195;N|0.000	0.195	strong	.	ZNF80	75	.	NM_007136	exon1	c.T735G	p.Y245X	GCACTCATAAGGT	.	PASS	Atlas-SNP
QSER1	79832	hgsc.bcm.edu	37	11	32996805	32996805	+	Silent	SNP	C	C	T	rs11032076	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	40	75	0	0.454545	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
ADAR	103	hgsc.bcm.edu	37	1	154561925	154561925	+	Silent	SNP	C	C	T	rs1127309	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	28	69	0	0.307692	0	T|0.294;G|0.003;C|0.701;A|0.002	0.294	strong	.	ADAR	113	.	NM_001111	exon9	c.G2682A	p.V894V	TCCTTTCACACAG	.	PASS	Atlas-SNP
SAA1	6288	hgsc.bcm.edu	37	11	18291321	18291321	+	Silent	SNP	T	T	C	rs12218	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	125	210	1	0.527426	0.0047619	T|0.648;C|0.352	0.352	strong	SAA1,NS,carcinoma,0,1	SAA1	14	1	NM_199161	exon4	c.T288C	p.A96A	GCTGGCTGATCAG	.	PASS	Atlas-SNP
SPNS3	201305	hgsc.bcm.edu	37	17	4356375	4356375	+	Missense_Mutation	SNP	G	G	T	rs11655342	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	137	131	1	1	0.00763359	G|0.759;T|0.241	0.241	strong	.	SPNS3	52	.	NM_182538	exon8	c.G988T	p.A330S	GAAGCTGCGAGGA	.	PASS	Atlas-SNP
NLRP1	22861	hgsc.bcm.edu	37	17	5462240	5462240	+	Silent	SNP	C	C	T	rs61753142	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	120	115	0	1	0	C|0.937;T|0.063	0.063	strong	.	NLRP1	358	.	NM_033007	exon4	c.G1776A	p.R592R	ATGCTTCCTGAGG	.	PASS	Atlas-SNP
ZC3H12C	85463	hgsc.bcm.edu	37	11	110035301	110035301	+	Silent	SNP	A	A	G	rs1026607	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	47	73	0	0.559524	0	A|0.729;G|0.271	0.271	strong	.	ZC3H12C	83	.	NM_033390	exon6	c.A1491G	p.T497T	AAGGACACAAGTC	.	PASS	Atlas-SNP
MOB3B	79817	hgsc.bcm.edu	37	9	27455135	27455135	+	Silent	SNP	G	G	A	rs34959338	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	54	144	0	0.519231	0	G|0.872;A|0.128	0.128	strong	.	.	.	.	NM_024761	exon2	c.C414T	p.C138C	ACCCACGCATGTT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	42	112	0	0.494118	0	C|0.605;G|0.395	0.395	strong	.	SOX21	21	.	NM_007084	exon1	c.G258C	p.L86L	CTTGAGCAGCGTC	.	PASS	Atlas-SNP
NPTX1	4884	hgsc.bcm.edu	37	17	78444679	78444679	+	Silent	SNP	T	T	C	rs28364735	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	119	56	79	0	0.470588	0	T|0.780;C|0.220	0.220	strong	.	NPTX1	28	.	NM_002522	exon5	c.A1233G	p.E411E	GTGGGATTCAGCC	.	PASS	Atlas-SNP
CCDC154	645811	hgsc.bcm.edu	37	16	1486462	1486462	+	Missense_Mutation	SNP	C	C	T	rs35583599	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	38	26	40	0	0.684211	0	C|0.928;T|0.072	0.072	strong	CCDC154,NS,lymphoid_neoplasm,0,1	CCDC154	27	1	NM_001143980	exon13	c.G1471A	p.A491T	CTTCGGCGGAAAT	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33636907	33636907	+	Silent	SNP	C	C	T	rs2077163	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	88	55	57	0	0.625	0	C|0.521;T|0.479	0.479	strong	.	ITPR3	409	.	NM_002224	exon18	c.C2163T	p.H721H	CGCCCACGACGAG	.	PASS	Atlas-SNP
FGFBP3	143282	hgsc.bcm.edu	37	10	93668110	93668110	+	Missense_Mutation	SNP	T	T	A	rs1107947	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	64	31	72	0	0.484375	0	T|0.805;A|0.195	0.195	strong	.	FGFBP3	6	.	NM_152429	exon2	c.A617T	p.E206V	TTGCCCTCGTTGG	.	PASS	Atlas-SNP
DVL2	1856	hgsc.bcm.edu	37	17	7133162	7133162	+	Silent	SNP	G	G	A	rs222836	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	75	28	82	0	0.373333	0	G|0.552;A|0.448	0.448	strong	.	DVL2	49	.	NM_004422	exon5	c.C621T	p.S207S	CCCCAGGCTGGTA	.	PASS	Atlas-SNP
SPRR3	6707	hgsc.bcm.edu	37	1	152975829	152975829	+	Silent	SNP	A	A	G	rs1970328	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	221	116	188	0	0.524887	0	A|0.462;G|0.538	0.538	strong	.	SPRR3	45	.	NM_001097589	exon2	c.A333G	p.E111E	CCCTGAACCAGGC	.	PASS	Atlas-SNP
CKAP5	9793	hgsc.bcm.edu	37	11	46789135	46789135	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	23	39	0	0.479167	0	.	.	none	.	CKAP5	134	.	NM_001008938	exon27	c.C3401G	p.S1134C	GCTTTAGAGGATA	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	193	87	139	0	0.450777	0	G|0.486;A|0.514	0.514	strong	.	RXRG	91	.	NM_006917	exon8	c.C1050T	p.V350V	AGTTAGGACTCTG	.	PASS	Atlas-SNP
MAPK8IP3	23162	hgsc.bcm.edu	37	16	1797050	1797050	+	Silent	SNP	C	C	T	rs2294613	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	49	109	0	0.449541	0	C|0.916;T|0.084	0.084	strong	.	MAPK8IP3	164	.	NM_015133	exon6	c.C765T	p.S255S	AATGTCCGAGTCA	.	PASS	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	37	7	157903538	157903538	+	Silent	SNP	A	A	G	rs1130501	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	79	20	84	0	0.253165	0	A|0.722;G|0.278	0.278	strong	.	PTPRN2	243	.	NM_002847	exon10	c.T1626C	p.S542S	GAACGCACTGCTG	.	PASS	Atlas-SNP
CCDC50	152137	hgsc.bcm.edu	37	3	191097966	191097966	+	Missense_Mutation	SNP	T	T	C	rs293813	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	116	155	0	0.991453	0	T|0.396;C|0.603	0.603	strong	CCDC50,NS,carcinoma,0,1	CCDC50	39	1	NM_178335	exon7	c.T995C	p.M332T	GAGTGATGAAAGA	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228492044	228492044	+	Silent	SNP	G	G	A	rs1150910	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	55	118	0	0.458333	0	G|0.636;A|0.364	0.364	strong	.	OBSCN	2142	.	NM_001271223	exon53	c.G14043A	p.E4681E	CCAGGAGGCCAGA	.	PASS	Atlas-SNP
SRCRB4D	136853	hgsc.bcm.edu	37	7	76029695	76029695	+	Missense_Mutation	SNP	C	C	T	rs4728712	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	96	60	110	0	0.625	0	C|0.829;T|0.171	0.171	strong	SRCRB4D,colon,carcinoma,0,1	SRCRB4D	47	1	NM_080744	exon4	c.G383A	p.R128H	TGCCCGCGGCACT	.	PASS	Atlas-SNP
FARP1	10160	hgsc.bcm.edu	37	13	99100547	99100547	+	Silent	SNP	T	T	C	rs12261	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	327	153	272	1	0.46789	0.00367647	T|0.458;C|0.542	0.542	strong	.	FARP1	207	.	NM_005766	exon27	c.T3114C	p.S1038S	GTTGAGTCACAAA	.	PASS	Atlas-SNP
MYO3B	140469	hgsc.bcm.edu	37	2	171260820	171260820	+	Silent	SNP	T	T	C	rs6751520	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	112	123	0	0.99115	0	T|0.196;C|0.804	0.804	strong	.	MYO3B	320	.	NM_001083615	exon20	c.T2341C	p.L781L	CCGCTCTTGGACA	.	PASS	Atlas-SNP
DLGAP2	9228	hgsc.bcm.edu	37	8	1616640	1616640	+	Silent	SNP	G	G	A	rs4565482	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	80	159	0	0.5	0	G|0.894;A|0.106	0.106	strong	DLGAP2_ENST00000356067,NS,carcinoma,0,5	DLGAP2	292	5	NM_004745	exon6	c.G1716A	p.P572P	GTCCCCGTGGCCC	.	PASS	Atlas-SNP
OR13C8	138802	hgsc.bcm.edu	37	9	107331504	107331504	+	Missense_Mutation	SNP	C	C	A	rs7026705	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	53	81	0	0.46087	0	C|0.434;A|0.566	0.566	strong	.	OR13C8	77	.	NM_001004483	exon1	c.C56A	p.A19D	TTTCTGCCCACCC	.	PASS	Atlas-SNP
C1orf186	440712	hgsc.bcm.edu	37	1	206239574	206239574	+	Silent	SNP	T	T	C	rs28391411	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	52	113	0	0.490566	0	T|0.811;C|0.189	0.189	strong	.	C1orf186	26	.	NM_001007544	exon6	c.A324G	p.T108T	ATCCTCTGTGGCC	.	PASS	Atlas-SNP
KLRC3	3823	hgsc.bcm.edu	37	12	10573094	10573094	+	Missense_Mutation	SNP	C	C	G	rs34195537	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	226	149	167	1	0.659292	0.00598802	C|0.500;G|0.500	0.500	weak	.	KLRC3	25	.	NM_007333	exon1	c.G56C	p.W19S	TGCTGCCACTTTG	.	PASS	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	37	4	175899076	175899076	+	Silent	SNP	A	A	G	rs61744599	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	208	66	137	1	0.317308	0.00729927	A|0.994;G|0.006	0.006	strong	ADAM29,NS,carcinoma,0,1	ADAM29	262	1	NM_001130703	exon4	c.A2400G	p.T800T	TGTGACACCCTCC	.	scavenged	Atlas-SNP
TRIM64C	646754	hgsc.bcm.edu	37	11	49080565	49080565	+	Missense_Mutation	SNP	A	A	C	rs7932738	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	327	169	275	0	0.51682	0	A|0.844;C|0.156	0.156	strong	TRIM64C,NS,carcinoma,0,1	TRIM64C	18	1	NM_001206631	exon1	c.T100G	p.F34V	TGCAAAAGCTGTG	.	PASS	Atlas-SNP
ELTD1	64123	hgsc.bcm.edu	37	1	79357360	79357360	+	Missense_Mutation	SNP	G	G	C	rs2275902	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	43	43	44	0	1	0	G|0.733;C|0.266	0.266	strong	.	ELTD1	143	.	NM_022159	exon14	c.C1859G	p.A620G	GCGAGGGCTCCTC	.	PASS	Atlas-SNP
ZBTB21	49854	hgsc.bcm.edu	37	21	43412705	43412705	+	Silent	SNP	A	A	G	rs61751943	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	62	101	0	0.5	0	A|0.931;G|0.069	0.069	strong	.	.	.	.	NM_001098402	exon3	c.T1500C	p.N500N	GTGCTCATTCACC	.	PASS	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	37	20	57768607	57768607	+	Missense_Mutation	SNP	G	G	C	rs181984	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	71	28	80	0	0.394366	0	G|0.898;C|0.102	0.102	strong	.	ZNF831	287	.	NM_178457	exon1	c.G2533C	p.G845R	ACCCCAGGTGGGC	.	PASS	Atlas-SNP
LAMB3	3914	hgsc.bcm.edu	37	1	209796329	209796329	+	Missense_Mutation	SNP	T	T	A	rs12748250	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	107	112	0	0.990741	0	T|0.890;A|0.110	0.110	strong	.	LAMB3	136	.	NM_000228	exon17	c.A2554T	p.M852L	TTACCATCTGCCT	.	PASS	Atlas-SNP
CHPF2	54480	hgsc.bcm.edu	37	7	150931268	150931268	+	Silent	SNP	C	C	G	rs2608293	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	60	140	0	0.444444	0	C|0.584;G|0.416	0.416	strong	.	CHPF2	52	.	NM_019015	exon1	c.C171G	p.S57S	AGATTCCAGAGCT	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1018574	1018574	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	605	47	600	27	0.077686	0.045	.	.	none	MUC6,NS,carcinoma,-1,1	MUC6	408	1	NM_005961	exon31	c.G4227A	p.P1409P	CGTAGGCGGGGAG	.	scavenged	Atlas-SNP
CEP55	55165	hgsc.bcm.edu	37	10	95279506	95279506	+	Missense_Mutation	SNP	A	A	T	rs2293277	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	33	61	0	0.478261	0	A|0.421;T|0.579	0.579	strong	.	CEP55	35	.	NM_018131	exon8	c.A1133T	p.H378L	AATTGCATGTAAT	.	PASS	Atlas-SNP
SLC25A40	55972	hgsc.bcm.edu	37	7	87476292	87476292	+	Silent	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	4	52	0	0.0540541	0	.	.	none	.	SLC25A40	32	.	NM_018843	exon8	c.T603C	p.P201P	AACAGTAGGAGCC	.	PASS	Atlas-SNP
C9orf9	11092	hgsc.bcm.edu	37	9	135763816	135763816	+	Silent	SNP	C	C	T	rs2073869	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	240	110	225	0	0.458333	0	C|0.808;T|0.192	0.192	strong	.	C9orf9	10	.	NM_018956	exon4	c.C487T	p.L163L	AAGGTGCTGCAGC	.	PASS	Atlas-SNP
CRADD	8738	hgsc.bcm.edu	37	12	94243853	94243853	+	Silent	SNP	C	C	T	rs56944668	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	126	69	135	1	0.547619	0.00740741	C|0.825;T|0.175	0.175	strong	CRADD,colon,carcinoma,0,1	CRADD	21	1	NM_003805	exon3	c.C406T	p.L136L	ATGGTGCTGTCTC	.	scavenged	Atlas-SNP
ZSCAN12	9753	hgsc.bcm.edu	37	6	28358335	28358335	+	Missense_Mutation	SNP	G	G	C	rs1416918	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	249	97	210	0	0.389558	0	G|0.614;C|0.386	0.386	strong	.	ZSCAN12	35	.	NM_001163391	exon4	c.C1732G	p.R578G	TACCACGTCTATT	.	PASS	Atlas-SNP
MYL10	93408	hgsc.bcm.edu	37	7	101256833	101256833	+	Silent	SNP	T	T	C	rs2240389	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	165	99	153	0	0.6	0	T|0.742;C|0.258	0.258	strong	.	MYL10	32	.	NM_138403	exon8	c.A603G	p.A201A	GGGAAATGCTGCA	.	PASS	Atlas-SNP
DBI	1622	hgsc.bcm.edu	37	2	120125053	120125053	+	Nonsense_Mutation	SNP	C	C	G	rs3731608	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	21	63	0	0.403846	0	C|0.819;G|0.181	0.181	strong	.	DBI	10	.	NM_001178017	exon1	c.C141G	p.Y47X	GAAGTACGGGGCC	.	PASS	Atlas-SNP
MYH11	4629	hgsc.bcm.edu	37	16	15811023	15811023	+	Silent	SNP	C	C	T	rs1050163	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	56	109	0	0.538462	0	C|0.592;T|0.408	0.408	strong	.	MYH11	520	.	NM_001040114	exon39	c.G5499A	p.L1833L	CTCCTCCAGCTGT	.	PASS	Atlas-SNP
AP3B1	8546	hgsc.bcm.edu	37	5	77473165	77473165	+	Silent	SNP	A	A	G	rs4532349	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	90	51	115	0	0.566667	0	A|0.832;G|0.168	0.168	strong	AP3B1,colon,carcinoma,0,1	AP3B1	94	1	NM_003664	exon9	c.T1038C	p.N346N	CTACCTATTGCTA	.	PASS	Atlas-SNP
LILRA4	23547	hgsc.bcm.edu	37	19	54849942	54849942	+	Missense_Mutation	SNP	G	G	A	rs2241384	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	24	46	0	0.6	0	G|0.827;A|0.173	0.173	strong	.	LILRA4	91	.	NM_012276	exon3	c.C80T	p.P27L	GGTTTGGGTAGGT	.	PASS	Atlas-SNP
CIITA	4261	hgsc.bcm.edu	37	16	11002904	11002904	+	Silent	SNP	G	G	A	rs2228238	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	143	74	142	0	0.517483	0	A|0.642;C|0.004	0.642	strong	.	CIITA	92	.	NM_000246	exon12	c.G2676A	p.T892T	CGACACGGTGGCG	.	PASS	Atlas-SNP
B4GALNT4	338707	hgsc.bcm.edu	37	11	380395	380395	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	3	87	0	0.0576923	0	.	.	none	B4GALNT4,NS,carcinoma,+1,1	B4GALNT4	83	1	NM_178537	exon18	c.C2819T	p.A940V	CCTTCGCGCCCGT	.	scavenged	Atlas-SNP
OTOL1	131149	hgsc.bcm.edu	37	3	161221705	161221705	+	Missense_Mutation	SNP	A	A	C	rs3921595	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	86	87	0	0.988506	0	A|0.541;C|0.459	0.459	strong	.	OTOL1	63	.	NM_001080440	exon4	c.A1409C	p.E470A	ACCCAGAGGAAAC	.	PASS	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	37	6	32549525	32549525	+	Missense_Mutation	SNP	C	C	G	rs16822698	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	558	77	314	0	0.137993	0	C|0.932;G|0.068	0.068	strong	.	HLA-DRB1	41	.	NM_002124	exon3	c.G461C	p.G154A	ATGCTGCCTGGAT	.	PASS	Atlas-SNP
RAG1	5896	hgsc.bcm.edu	37	11	36597313	36597313	+	Missense_Mutation	SNP	A	A	G	rs2227973	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	53	98	0	0.486239	0	A|0.820;G|0.180	0.180	strong	.	RAG1	151	.	NM_000448	exon2	c.A2459G	p.K820R	TGTATAAGAATCC	.	PASS	Atlas-SNP
SLC5A10	125206	hgsc.bcm.edu	37	17	18855611	18855611	+	Silent	SNP	T	T	C	rs2076562	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	75	232	1	0.369458	0.00431034	T|0.605;C|0.395	0.395	strong	SLC5A10,NS,carcinoma,0,1	SLC5A10	55	1	NM_001042450	exon1	c.T93C	p.N31N	TCTGAATGTGGCC	.	scavenged	Atlas-SNP
MAMLD1	10046	hgsc.bcm.edu	37	X	149642019	149642019	+	Missense_Mutation	SNP	A	A	G	rs2073043	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	108	107	175	0	0.990741	0	A|0.889;0|0.027	.	strong	.	MAMLD1	263	.	NM_005491	exon4	c.A1985G	p.N662S	ACGGGAACTCTTT	.	PASS	Atlas-SNP
ADGB	79747	hgsc.bcm.edu	37	6	147136212	147136212	+	Missense_Mutation	SNP	A	A	T	rs1052444	bycluster;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	399	180	367	1	0.451128	0.0027248	A|0.575;T|0.425	0.425	strong	.	ADGB	93	.	NM_024694	exon36	c.A4863T	p.E1621D	CCGGGAAGAGTAC	.	PASS	Atlas-SNP
PLG	5340	hgsc.bcm.edu	37	6	161139480	161139480	+	Silent	SNP	C	C	T	rs1130656	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	106	56	96	0	0.528302	0	C|0.636;T|0.364	0.364	strong	PLG,NS,carcinoma,0,1	PLG	150	1	NM_000301	exon8	c.C942T	p.F314F	AAACTTCCCCTGC	.	PASS	Atlas-SNP
AGTR1	185	hgsc.bcm.edu	37	3	148459395	148459395	+	Silent	SNP	C	C	T	rs5182	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	92	177	0	0.464646	0	C|0.584;T|0.416	0.416	strong	.	AGTR1	63	.	NM_031850	exon4	c.C678T	p.L226L	AACCCTCCCGATA	.	PASS	Atlas-SNP
UGT1A6	54578	hgsc.bcm.edu	37	2	234601965	234601965	+	Silent	SNP	A	A	G	rs1105880	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	63	118	0	0.533898	0	A|0.659;G|0.341	0.341	strong	.	UGT1A6	63	.	NM_001072	exon1	c.A315G	p.L105L	ATTCCTAACTGCT	.	PASS	Atlas-SNP
R3HCC1L	27291	hgsc.bcm.edu	37	10	99969568	99969568	+	Missense_Mutation	SNP	A	A	G	rs11189513	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	100	43	113	0	0.43	0	A|0.750;G|0.250	0.250	strong	.	R3HCC1L	3	.	NM_001256620	exon4	c.A1697G	p.H566R	CTTCTCACACAGA	.	PASS	Atlas-SNP
SLC4A3	6508	hgsc.bcm.edu	37	2	220502367	220502367	+	Missense_Mutation	SNP	A	A	C	rs635311	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	196	87	259	0	0.443878	0	A|0.312;C|0.688	0.688	strong	.	SLC4A3	144	.	NM_201574	exon17	c.A2681C	p.D894A	CCCTGGATGCTGG	.	PASS	Atlas-SNP
RSPO2	340419	hgsc.bcm.edu	37	8	108970367	108970367	+	Missense_Mutation	SNP	A	A	G	rs601558	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	245	245	212	0	1	0	A|0.508;G|0.492	0.492	strong	.	RSPO2	65	.	NM_178565	exon5	c.T557C	p.L186P	GGACACAGTATTG	.	PASS	Atlas-SNP
ZNF479	90827	hgsc.bcm.edu	37	7	57188016	57188016	+	Missense_Mutation	SNP	A	A	G	rs78588121	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	297	123	275	0	0.414141	0	A|0.678;G|0.322	0.322	strong	ZNF479,NS,carcinoma,0,1	ZNF479	193	1	NM_033273	exon5	c.T1106C	p.M369T	TGTCTCATAAGGT	.	PASS	Atlas-SNP
PGR	5241	hgsc.bcm.edu	37	11	100922202	100922202	+	Silent	SNP	G	G	A	rs1042839	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	191	190	161	1	0.994764	0.00621118	G|0.892;A|0.108	0.108	strong	.	PGR	115	.	NM_000926	exon5	c.C2310T	p.H770H	ACTGACGTGTTTG	.	PASS	Atlas-SNP
FAM167A	83648	hgsc.bcm.edu	37	8	11301733	11301733	+	Missense_Mutation	SNP	G	G	A	rs147319341	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	58	31	69	0	0.534483	0	G|0.979;A|0.021	0.021	strong	.	FAM167A	21	.	NM_053279	exon2	c.C188T	p.P63L	GCAGCCGGCCTCG	.	PASS	Atlas-SNP
DMXL2	23312	hgsc.bcm.edu	37	15	51914716	51914716	+	Silent	SNP	T	T	C	rs2278989	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	91	168	0	0.450495	0	T|0.563;C|0.437	0.437	strong	.	DMXL2	262	.	NM_001174117	exon1	c.A27G	p.G9G	GACAGCTCCGGTG	.	PASS	Atlas-SNP
KCNH5	27133	hgsc.bcm.edu	37	14	63174700	63174700	+	Silent	SNP	G	G	A	rs142813655		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	425	210	359	0	0.494118	0	G|1.000;A|0.000	0.000	weak	.	KCNH5	320	.	NM_139318	exon11	c.C2493T	p.V831V	TTTAGTGACATTA	.	PASS	Atlas-SNP
CELSR3	1951	hgsc.bcm.edu	37	3	48697654	48697654	+	Missense_Mutation	SNP	C	C	G	rs3821875	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	71	102	0	0.510791	0	C|0.877;G|0.123	0.123	strong	.	CELSR3	237	.	NM_001407	exon1	c.G2414C	p.S805T	TGGGTGCTGATGG	.	PASS	Atlas-SNP
FAM170A	340069	hgsc.bcm.edu	37	5	118969960	118969960	+	Missense_Mutation	SNP	C	C	T	rs328694	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	166	68	146	0	0.409639	0	C|0.562;T|0.438	0.438	strong	FAM170A,NS,carcinoma,0,1	FAM170A	47	1	NM_182761	exon3	c.C517T	p.P173S	ACTCCCCCCTCTG	.	PASS	Atlas-SNP
FXYD4	53828	hgsc.bcm.edu	37	10	43869097	43869097	+	Splice_Site	SNP	C	C	A	rs10899795	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	30	12	26	0	0.4	0	C|0.603;A|0.397	0.397	strong	.	FXYD4	9	.	.	.	.	.	TCCTCTCGCTGAC	.	PASS	Atlas-SNP
PTX4	390667	hgsc.bcm.edu	37	16	1538433	1538433	+	Silent	SNP	A	A	G	rs2745102	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	231	109	237	1	0.471861	0.00421941	A|0.759;G|0.241	0.241	strong	.	PTX4	46	.	NM_001013658	exon1	c.T36C	p.P12P	GCCACAAGGTGGA	.	PASS	Atlas-SNP
GPR133	283383	hgsc.bcm.edu	37	12	131590404	131590404	+	Silent	SNP	G	G	A	rs4759544	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	19	10	35	0	0.526316	0	G|0.798;A|0.202	0.202	strong	.	GPR133	136	.	NM_198827	exon17	c.G1881A	p.P627P	CGAGCCGGGCACG	.	PASS	Atlas-SNP
BLK	640	hgsc.bcm.edu	37	8	11414237	11414237	+	Silent	SNP	T	T	C	rs2306234	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	152	152	158	1	1	0.00632911	T|0.171;C|0.829	0.829	strong	.	BLK	78	.	NM_001715	exon9	c.T843C	p.F281F	AGCCTTTCTGGGT	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	125	57	120	0	0.456	0	A|0.728;G|0.272	0.272	strong	.	DNAH12	182	.	NM_178504	exon34	c.T5110C	p.Y1704H	CTTGATATTCTGG	.	PASS	Atlas-SNP
TSPYL4	23270	hgsc.bcm.edu	37	6	116574455	116574455	+	Silent	SNP	G	G	A	rs2232472	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	59	81	0	0.621053	0	G|0.630;A|0.370	0.370	strong	.	TSPYL4	18	.	NM_021648	exon1	c.C717T	p.H239H	CTGCATGTGGAGC	.	PASS	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	37	1	186281400	186281400	+	Missense_Mutation	SNP	C	C	T	rs12134934	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	147	70	108	0	0.47619	0	C|0.958;T|0.042	0.042	strong	.	PRG4	259	.	NM_005807	exon11	c.C3887T	p.T1296M	GAGAAACGACACA	.	PASS	Atlas-SNP
CHRNA4	1137	hgsc.bcm.edu	37	20	61981134	61981134	+	Silent	SNP	G	G	A	rs1044396	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	23	31	0	0.575	0	G|0.625;A|0.375	0.375	strong	.	CHRNA4	98	.	NM_000744	exon5	c.C1629T	p.S543S	CGTGGCGCTCGGG	.	PASS	Atlas-SNP
C1orf53	388722	hgsc.bcm.edu	37	1	197874949	197874949	+	Silent	SNP	T	T	C	rs2270763	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268	141	247	0	0.526119	0	T|0.659;C|0.341	0.341	strong	.	C1orf53	18	.	NM_001024594	exon2	c.T288C	p.D96D	TGTGGATCCAGCT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238853	31238853	+	Missense_Mutation	SNP	C	C	T	rs17849598	bycluster	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	315	10	291	1	0.031746	0.00343643	.	.	weak	HLA-C_ENST00000383329,NS,carcinoma,0,2	HLA-C	92	2	NM_002117	exon3	c.G616A	p.A206T	TACCTGCGCGCTG	.	scavenged	Atlas-SNP
RBM26	64062	hgsc.bcm.edu	37	13	79940811	79940811	+	Silent	SNP	T	T	C	rs7327603	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	43	81	0	0.5	0	T|0.502;C|0.498	0.498	strong	.	RBM26	199	.	NM_022118	exon7	c.A1092G	p.V364V	CGGTGGTACTGGG	.	PASS	Atlas-SNP
FCRLA	84824	hgsc.bcm.edu	37	1	161683136	161683136	+	Missense_Mutation	SNP	G	G	A	rs11746	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	129	127	0	0.992308	0	G|0.661;A|0.339	0.339	strong	FCRLA,NS,carcinoma,0,1	FCRLA	101	1	NM_001184866	exon6	c.G1115A	p.R372Q	GCCACCGGAAGCC	.	PASS	Atlas-SNP
ARSD	414	hgsc.bcm.edu	37	X	2836047	2836047	+	Missense_Mutation	SNP	C	C	T	rs67359049	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	110	45	125	0	0.409091	0	C|0.938;T|0.062	0.062	strong	.	ARSD	47	.	NM_001669	exon5	c.G661A	p.G221S	AGAAACCGCAGGT	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13788886	13788886	+	Missense_Mutation	SNP	C	C	A	rs10513155	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	151	188	0	0.578544	0	C|0.765;A|0.235	0.235	strong	.	DNAH5	868	.	NM_001369	exon51	c.G8586T	p.L2862F	ATCCACCAAGAGT	.	PASS	Atlas-SNP
FCHO2	115548	hgsc.bcm.edu	37	5	72347223	72347223	+	Silent	SNP	A	A	G	rs7712838	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	117	113	0	0.991525	0	A|0.673;G|0.327	0.327	strong	.	FCHO2	96	.	NM_138782	exon12	c.A987G	p.T329T	AGAAACAAATCAG	.	PASS	Atlas-SNP
WDR91	29062	hgsc.bcm.edu	37	7	134889141	134889141	+	Missense_Mutation	SNP	G	G	A	rs292592	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	61	106	0	0.455224	0	G|0.349;A|0.651	0.651	strong	WDR91,NS,carcinoma,0,1	WDR91	82	1	NM_014149	exon6	c.C770T	p.P257L	ACACGAGGTGACT	.	PASS	Atlas-SNP
HIPK2	28996	hgsc.bcm.edu	37	7	139288937	139288937	+	Silent	SNP	C	C	T	rs34093649	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	70	32	53	0	0.457143	0	C|0.981;T|0.019	0.019	strong	.	HIPK2	192	.	NM_022740	exon10	c.G2145A	p.L715L	GGGAAGCAGGATC	.	PASS	Atlas-SNP
GTPBP4	23560	hgsc.bcm.edu	37	10	1046712	1046712	+	Silent	SNP	G	G	A	rs2306409	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	139	147	0	0.985816	0	G|0.492;N|0.000	.	strong	.	GTPBP4	57	.	NM_012341	exon7	c.G750A	p.A250A	TGCTGCGGTCCTG	.	PASS	Atlas-SNP
MPDZ	8777	hgsc.bcm.edu	37	9	13150558	13150558	+	Missense_Mutation	SNP	A	A	C	rs188840960	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	141	75	132	0	0.531915	0	A|0.997;C|0.003	0.003	strong	.	MPDZ	324	.	NM_003829	exon25	c.T3582G	p.S1194R	AGCTGGACTATCT	.	PASS	Atlas-SNP
COL3A1	1281	hgsc.bcm.edu	37	2	189864080	189864080	+	Missense_Mutation	SNP	G	G	A	rs1800255	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	84	35	75	0	0.416667	0	G|0.808;A|0.192	0.192	strong	.	COL3A1	292	.	NM_000090	exon30	c.G2092A	p.A698T	GGTGGAGCTGGTC	.	PASS	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	37	10	26357747	26357747	+	Silent	SNP	C	C	T	rs35379457	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	85	30	91	0	0.352941	0	C|0.552;T|0.448	0.448	strong	MYO3A,brain,glioma,0,3	MYO3A	371	3	NM_017433	exon12	c.C1104T	p.Y368Y	GATCTACGTCTAT	.	PASS	Atlas-SNP
GLDC	2731	hgsc.bcm.edu	37	9	6610326	6610326	+	Silent	SNP	C	C	T	rs35374927	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	150	79	197	1	0.526667	0.00507614	C|0.773;T|0.227	0.227	strong	.	GLDC	118	.	NM_000170	exon4	c.G501A	p.E167E	AGACACCTCAGGC	.	PASS	Atlas-SNP
ZSCAN12	9753	hgsc.bcm.edu	37	6	28366151	28366151	+	Missense_Mutation	SNP	A	A	G	rs2232423	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	353	140	284	0	0.396601	0	A|0.959;G|0.041	0.041	strong	.	ZSCAN12	35	.	NM_001163391	exon2	c.T32C	p.M11T	TGGTCCATGTGGG	.	PASS	Atlas-SNP
BCKDK	10295	hgsc.bcm.edu	37	16	31121793	31121793	+	Silent	SNP	G	G	A	rs14235	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	122	64	124	0	0.52459	0	G|0.642;A|0.358	0.358	strong	BCKDK_ENST00000394951,rectum,carcinoma,0,2	BCKDK	52	2	NM_005881	exon7	c.G615A	p.T205T	GGCCACGCATCAC	.	PASS	Atlas-SNP
LARS	51520	hgsc.bcm.edu	37	5	145543972	145543972	+	Silent	SNP	G	G	A	rs3763373	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	253	68	232	1	0.268775	0.00431034	G|0.801;A|0.199	0.199	strong	LARS,NS,carcinoma,0,1	LARS	100	1	NM_020117	exon6	c.C495T	p.G165G	AGACAGGCCAAGG	.	scavenged	Atlas-SNP
ERI2	112479	hgsc.bcm.edu	37	16	20811681	20811681	+	Silent	SNP	C	C	T	rs2301771	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	252	110	276	2	0.436508	0.00724638	C|0.331;T|0.669	0.669	strong	ERI2_ENST00000357967,colon,carcinoma,-1,2	ERI2	50	2	NM_080663	exon6	c.G504A	p.K168K	CAGCTGCTTTCTT	.	scavenged	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29754609	29754609	+	Silent	SNP	T	T	C	rs1057952	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	390	203	403	0	0.520513	0	T|0.629;C|0.371	0.371	strong	SVIL,NS,carcinoma,0,1	SVIL	226	1	NM_021738	exon34	c.A6048G	p.T2016T	AAACTCTGTGGCT	.	PASS	Atlas-SNP
C19orf40	91442	hgsc.bcm.edu	37	19	33467576	33467576	+	Silent	SNP	G	G	A	rs7258185	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	44	87	0	0.392857	0	G|0.753;A|0.247	0.247	strong	.	C19orf40	21	.	NM_152266	exon5	c.G636A	p.T212T	CTTCACGCAGCCC	.	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-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	55	88	0	0.555556	0	G|0.650;A|0.350	0.350	strong	.	.	.	.	NM_001242939	exon5	c.G817A	p.E273K	CTGCAGGAGACAG	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38748833	38748833	+	Silent	SNP	T	T	C	rs6790627	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	269	160	305	0	0.594796	0	T|0.796;C|0.204	0.204	strong	SCN10A,NS,carcinoma,0,1	SCN10A	359	1	NM_006514	exon25	c.A4323G	p.K1441K	GTAGTATTTCTTC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508235	195508235	+	Missense_Mutation	SNP	T	T	C	rs201826718	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	364	28	280	0	0.0769231	0	T|0.006;C|0.994	0.994	strong	.	MUC4	1505	.	NM_018406	exon2	c.A10216G	p.T3406A	GCATGGTGTCACC	.	PASS	Atlas-SNP
COL6A5	256076	hgsc.bcm.edu	37	3	130095179	130095179	+	Missense_Mutation	SNP	T	T	C	rs113396273	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	175	87	198	0	0.497143	0	T|0.989;C|0.011	0.011	strong	.	COL6A5	205	.	NM_153264	exon3	c.T167C	p.M56T	ACAAAATGATCAA	.	PASS	Atlas-SNP
GPR142	350383	hgsc.bcm.edu	37	17	72366771	72366771	+	Missense_Mutation	SNP	T	T	C	rs138812881	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	187	91	192	0	0.486631	0	T|0.999;C|0.001	0.001	strong	.	GPR142	74	.	NM_181790	exon3	c.T470C	p.V157A	CTGGCGTCATCCC	.	PASS	Atlas-SNP
E2F7	144455	hgsc.bcm.edu	37	12	77419593	77419593	+	Silent	SNP	A	A	G	rs310830	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	40	72	0	0.526316	0	A|0.919;G|0.081	0.081	strong	.	E2F7	201	.	NM_203394	exon12	c.T2310C	p.S770S	AAGAGTAGAAGAA	.	PASS	Atlas-SNP
PLEKHG1	57480	hgsc.bcm.edu	37	6	151161018	151161018	+	Silent	SNP	A	A	G	rs17348890	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	155	82	153	0	0.529032	0	A|0.883;G|0.117	0.117	strong	.	PLEKHG1	97	.	NM_001029884	exon17	c.A3144G	p.R1048R	ATTCAGAGAGTCT	.	PASS	Atlas-SNP
COLEC11	78989	hgsc.bcm.edu	37	2	3673648	3673648	+	Silent	SNP	G	G	A	rs10170348	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	91	41	88	0	0.450549	0	G|0.878;A|0.122	0.122	strong	.	COLEC11	93	.	NM_199235	exon4	c.G159A	p.K53K	AAGGAAGTGCACC	.	PASS	Atlas-SNP
SULT2B1	6820	hgsc.bcm.edu	37	19	49079246	49079246	+	Silent	SNP	C	C	T	rs2544794	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	123	62	106	0	0.504065	0	C|0.852;T|0.148	0.148	strong	.	SULT2B1	72	.	NM_177973	exon2	c.C120T	p.P40P	CTTCCCCGTCGGC	.	PASS	Atlas-SNP
MTHFR	4524	hgsc.bcm.edu	37	1	11863057	11863057	+	Silent	SNP	G	G	A	rs2066470	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	124	42	139	0	0.33871	0	G|0.910;A|0.090	0.090	strong	.	MTHFR	65	.	NM_005957	exon2	c.C117T	p.P39P	CCGCTCGGGGTCC	.	PASS	Atlas-SNP
DPP3	10072	hgsc.bcm.edu	37	11	66272237	66272237	+	Missense_Mutation	SNP	G	G	A	rs2305535	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	73	29	87	0	0.39726	0	G|0.793;A|0.207	0.207	strong	.	DPP3	61	.	NM_130443	exon17	c.G2033A	p.R678H	ACACTCGCCTTGA	.	PASS	Atlas-SNP
SMYD4	114826	hgsc.bcm.edu	37	17	1704296	1704296	+	Missense_Mutation	SNP	C	C	A	rs7224496	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	131	60	117	0	0.458015	0	C|0.642;A|0.358	0.358	strong	.	SMYD4	50	.	NM_052928	exon5	c.G392T	p.R131I	TGTGCTCTGTTAA	.	PASS	Atlas-SNP
SYNJ1	8867	hgsc.bcm.edu	37	21	34059352	34059352	+	Missense_Mutation	SNP	T	T	C	rs2254562	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	47	25	45	0	0.531915	0	T|0.699;C|0.301	0.301	strong	.	SYNJ1	253	.	NM_203446	exon8	c.A1001G	p.K334R	ATTTGTTTACCAT	.	PASS	Atlas-SNP
BRDT	676	hgsc.bcm.edu	37	1	92457843	92457843	+	Missense_Mutation	SNP	C	C	T	rs10747493	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	52	36	0	1	0	C|0.259;T|0.741	0.741	strong	.	BRDT	133	.	NM_001242806	exon14	c.C2099T	p.P700L	GCATACCGCCTGA	.	PASS	Atlas-SNP
PCNXL2	80003	hgsc.bcm.edu	37	1	233134086	233134086	+	Missense_Mutation	SNP	C	C	T	rs56231757	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	42	88	0	0.442105	0	C|0.789;T|0.211	0.211	strong	.	PCNXL2	204	.	NM_014801	exon32	c.G5702A	p.S1901N	CCACCACTCGGGG	.	PASS	Atlas-SNP
LIMA1	51474	hgsc.bcm.edu	37	12	50571221	50571221	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	277	125	269	0	0.451264	0	.	.	none	.	LIMA1	67	.	NM_001113546	exon11	c.G1909A	p.V637M	TTTCCACTTGTTT	.	PASS	Atlas-SNP
ITSN2	50618	hgsc.bcm.edu	37	2	24426534	24426534	+	Silent	SNP	A	A	G	rs61754183	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	47	72	0	0.494737	0	A|0.975;G|0.025	0.025	strong	.	ITSN2	224	.	NM_006277	exon40	c.T5055C	p.R1685R	GTCAAAACGGACC	.	PASS	Atlas-SNP
ELOVL4	6785	hgsc.bcm.edu	37	6	80626375	80626375	+	Missense_Mutation	SNP	T	T	C	rs3812153	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	270	171	291	0	0.633333	0	T|0.831;C|0.169	0.169	strong	.	ELOVL4	46	.	NM_022726	exon6	c.A895G	p.M299V	CTATCATGAGTTG	.	PASS	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	37	1	156883546	156883546	+	Missense_Mutation	SNP	A	A	G	rs12137505	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	168	103	137	0	0.613095	0	A|0.621;G|0.379	0.379	strong	.	PEAR1	118	.	NM_001080471	exon21	c.A2707G	p.N903D	TTCTACAATAAAG	.	PASS	Atlas-SNP
OR4X2	119764	hgsc.bcm.edu	37	11	48266736	48266736	+	Nonsense_Mutation	SNP	C	C	G	rs7120775	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	248	119	202	0	0.479839	0	C|0.823;G|0.176;T|0.002	0.176	strong	OR4X2,NS,carcinoma,0,1	OR4X2	65	1	NM_001004727	exon1	c.C81G	p.Y27X	CTTGTACACAGCA	.	PASS	Atlas-SNP
CFI	3426	hgsc.bcm.edu	37	4	110682723	110682723	+	Missense_Mutation	SNP	G	G	A	rs138346388	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	132	59	134	0	0.44697	0	G|0.999;A|0.001	0.001	strong	.	CFI	59	.	NM_000204	exon4	c.C608T	p.T203I	CCCATAGTTCTTC	.	PASS	Atlas-SNP
IER2	9592	hgsc.bcm.edu	37	19	13264398	13264398	+	Missense_Mutation	SNP	C	C	T	rs1042164	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	19	13	23	0	0.684211	0	C|0.921;T|0.079	0.079	strong	.	IER2	14	.	NM_004907	exon2	c.C398T	p.A133V	GGGACGCTGGACT	.	PASS	Atlas-SNP
VWA5B2	90113	hgsc.bcm.edu	37	3	183951431	183951431	+	Missense_Mutation	SNP	C	C	T	rs902417	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	188	98	140	1	0.521277	0.00714286	C|0.788;T|0.212	0.212	strong	VWA5B2,NS,carcinoma,0,1	VWA5B2	47	1	NM_138345	exon4	c.C598T	p.P200S	GCTGCCCCTCGGG	.	scavenged	Atlas-SNP
PEMT	10400	hgsc.bcm.edu	37	17	17409560	17409560	+	Missense_Mutation	SNP	C	C	T	rs7946	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	171	171	157	0	1	0	C|0.580;T|0.420	0.420	strong	PEMT,NS,carcinoma,0,1	PEMT	12	1	NM_001267552	exon7	c.G665A	p.S222N	GAGCCACTATGTA	.	PASS	Atlas-SNP
CELSR3	1951	hgsc.bcm.edu	37	3	48699519	48699519	+	Silent	SNP	C	C	T	rs3733086	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	50	92	0	0.50505	0	C|0.885;T|0.115	0.115	strong	.	CELSR3	237	.	NM_001407	exon1	c.G549A	p.K183K	CACCGGCTTGGGA	.	PASS	Atlas-SNP
LGR6	59352	hgsc.bcm.edu	37	1	202288293	202288293	+	Silent	SNP	C	C	T	rs56234832	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	98	180	0	0.480392	0	C|0.914;T|0.086	0.086	strong	.	LGR6	102	.	NM_001017403	exon18	c.C2862T	p.G954G	GGGTGGCGGCTTT	.	PASS	Atlas-SNP
CCL23	6368	hgsc.bcm.edu	37	17	34340284	34340284	+	Missense_Mutation	SNP	C	C	T	rs1003645	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	57	135	0	0.425373	0	C|0.421;T|0.579	0.579	strong	.	CCL23	17	.	NM_005064	exon4	c.G367A	p.V123M	TTCTCACGCAAAC	.	PASS	Atlas-SNP
EFCAB7	84455	hgsc.bcm.edu	37	1	63997633	63997633	+	Silent	SNP	A	A	T	rs9804078	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	120	62	142	0	0.516667	0	A|0.815;T|0.185	0.185	strong	EFCAB7,colon,carcinoma,+1,1	EFCAB7	45	1	NM_032437	exon3	c.A330T	p.S110S	AAAATCATTTAAG	.	PASS	Atlas-SNP
C12orf42	374470	hgsc.bcm.edu	37	12	103696182	103696182	+	Missense_Mutation	SNP	T	T	G	rs79387839	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	112	62	82	0	0.553571	0	T|0.864;G|0.136	0.136	strong	.	C12orf42	50	.	NM_001099336	exon6	c.A787C	p.S263R	GTCTGCTTTGGAT	.	PASS	Atlas-SNP
OR1F1	4992	hgsc.bcm.edu	37	16	3254972	3254972	+	Silent	SNP	T	T	C	rs2075851	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	214	76	223	0	0.35514	0	T|0.618;C|0.382	0.382	strong	.	OR1F1	36	.	NM_012360	exon1	c.T726C	p.G242G	CTGTGGTTCTCAC	.	PASS	Atlas-SNP
ERI2	112479	hgsc.bcm.edu	37	16	20810067	20810067	+	Missense_Mutation	SNP	T	T	C	rs3213646	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	113	54	126	0	0.477876	0	T|0.674;C|0.326	0.326	strong	.	ERI2	50	.	NM_001142725	exon9	c.A1055G	p.Y352C	TGCATATAGATAG	.	PASS	Atlas-SNP
ZNF354B	117608	hgsc.bcm.edu	37	5	178309735	178309735	+	Silent	SNP	A	A	C	rs148284462	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	160	70	149	0	0.4375	0	A|0.999;C|0.001	0.001	strong	.	ZNF354B	67	.	NM_058230	exon5	c.A282C	p.T94T	AATGACAAAGTCA	.	PASS	Atlas-SNP
LIPG	9388	hgsc.bcm.edu	37	18	47093864	47093864	+	Missense_Mutation	SNP	C	C	T	rs2000813	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	86	50	95	0	0.581395	0	C|0.760;T|0.240	0.240	strong	.	LIPG	47	.	NM_006033	exon3	c.C332T	p.T111I	TGCACACAAGAGA	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145296403	145296403	+	Silent	SNP	C	C	T	rs4996269	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	178	8	269	4	0.0449438	0.0148699	T|0.001;G|0.956	0.001	strong	NBPF10,NS,carcinoma,0,1	NBPF10	221	1	NM_001039703	exon3	c.C325T	p.L109L	ACCCAGCTAAGGG	.	scavenged	Atlas-SNP
NPHS1	4868	hgsc.bcm.edu	37	19	36342212	36342212	+	Missense_Mutation	SNP	C	C	T	rs3814995	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	105	58	106	0	0.552381	0	C|0.735;T|0.265	0.265	strong	.	NPHS1	165	.	NM_004646	exon3	c.G349A	p.E117K	CCATCTCAGAGCG	.	PASS	Atlas-SNP
PTCHD2	57540	hgsc.bcm.edu	37	1	11579470	11579470	+	Missense_Mutation	SNP	G	G	A	rs2072994	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	67	38	78	0	0.567164	0	G|0.553;A|0.447	0.447	strong	.	PTCHD2	193	.	NM_020780	exon8	c.G1948A	p.A650T	TTTGCCGCTCCCG	.	PASS	Atlas-SNP
SEMA3C	10512	hgsc.bcm.edu	37	7	80374438	80374438	+	Silent	SNP	T	T	C	rs1949972	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	237	237	203	0	1	0	T|0.123;C|0.877	0.877	strong	.	SEMA3C	106	.	NM_006379	exon18	c.A2028G	p.P676P	GGTCCATGGGGAC	.	PASS	Atlas-SNP
TEP1	7011	hgsc.bcm.edu	37	14	20863677	20863677	+	Silent	SNP	C	C	A	rs2228036	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	263	261	234	0	0.992395	0	C|0.753;A|0.247	0.247	strong	.	TEP1	224	.	NM_007110	exon12	c.G1860T	p.R620R	TGCCATCCGAAGC	.	PASS	Atlas-SNP
CPSF4L	642843	hgsc.bcm.edu	37	17	71248777	71248777	+	Silent	SNP	T	T	C	rs74909356	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	164	79	206	0	0.481707	0	T|0.998;C|0.002	0.002	strong	.	CPSF4L	8	.	NM_001129885	exon5	c.A489G	p.Q163Q	AGCAAATTGGCAC	.	PASS	Atlas-SNP
BARD1	580	hgsc.bcm.edu	37	2	215674224	215674224	+	Missense_Mutation	SNP	G	G	A	rs1048108	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	29	17	82	0	0.586207	0	G|0.674;A|0.326	0.326	strong	BARD1_ENST00000260947,NS,carcinoma,0,4	BARD1	138	4	NM_000465	exon1	c.C70T	p.P24S	TGGCGGGCGCGGA	.	PASS	Atlas-SNP
CEP128	145508	hgsc.bcm.edu	37	14	81382845	81382845	+	Missense_Mutation	SNP	C	C	A	rs7160694	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	118	57	94	0	0.483051	0	A|0.045;C|0.954;T|0.000	0.045	strong	.	CEP128	146	.	NM_152446	exon2	c.G47T	p.R16L	CTCAATCGGTCAC	.	PASS	Atlas-SNP
GFPT2	9945	hgsc.bcm.edu	37	5	179734200	179734200	+	Silent	SNP	A	A	G	rs73343449	bycluster;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	134	82	144	0	0.61194	0	A|0.788;G|0.212	0.212	strong	GFPT2,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	GFPT2	74	1	NM_005110	exon16	c.T1650C	p.Y550Y	GGTGGCATAGTTG	.	PASS	Atlas-SNP
LARS	51520	hgsc.bcm.edu	37	5	145508636	145508636	+	Missense_Mutation	SNP	T	T	C	rs61732383	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	83	26	93	0	0.313253	0	T|0.808;C|0.192	0.192	strong	LARS,NS,carcinoma,0,1	LARS	100	1	NM_020117	exon26	c.A2674G	p.N892D	CTTCATTAACAGG	.	PASS	Atlas-SNP
AKNA	80709	hgsc.bcm.edu	37	9	117124731	117124731	+	Missense_Mutation	SNP	G	G	A	rs3748176	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	60	29	37	0	0.483333	0	G|0.599;A|0.401	0.401	strong	AKNA,NS,carcinoma,0,1	AKNA	119	1	NM_030767	exon8	c.C1871T	p.P624L	GCAAGCGGCTGGG	.	PASS	Atlas-SNP
SULT6B1	391365	hgsc.bcm.edu	37	2	37406644	37406644	+	Silent	SNP	A	A	G	rs10182091	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	87	44	72	0	0.505747	0	A|0.697;G|0.303	0.303	strong	.	SULT6B1	46	.	NM_001032377	exon4	c.T372C	p.Y124Y	AGAGCCATAGCTT	.	PASS	Atlas-SNP
ZNF665	79788	hgsc.bcm.edu	37	19	53667804	53667804	+	Missense_Mutation	SNP	C	C	T	rs4801958	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	65	31	45	0	0.476923	0	C|0.514;T|0.486	0.486	strong	.	ZNF665	136	.	NM_024733	exon4	c.G1939A	p.V647I	TATGGACTGCCAT	.	PASS	Atlas-SNP
VAV3	10451	hgsc.bcm.edu	37	1	108185309	108185309	+	Missense_Mutation	SNP	G	G	A	rs12410676	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	53	104	0	0.540816	0	G|0.884;A|0.116	0.116	strong	.	VAV3	176	.	NM_006113	exon20	c.C1846T	p.P616S	GTAAAGGGGGTCC	.	PASS	Atlas-SNP
ADAMTSL4	54507	hgsc.bcm.edu	37	1	150526044	150526044	+	Missense_Mutation	SNP	G	G	C	rs41317515	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	179	177	135	0	0.988827	0	G|0.456;C|0.544	0.544	strong	.	ADAMTSL4	101	.	NM_019032	exon6	c.G577C	p.A193P	GAAGAGGCTATTC	.	PASS	Atlas-SNP
BMPER	168667	hgsc.bcm.edu	37	7	34009955	34009955	+	Silent	SNP	A	A	T	rs147600292	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	242	111	241	0	0.458678	0	A|0.994;T|0.006	0.006	strong	.	BMPER	131	.	NM_133468	exon6	c.A417T	p.T139T	TGTCACAGAGTCT	.	PASS	Atlas-SNP
CPN1	1369	hgsc.bcm.edu	37	10	101829514	101829514	+	Missense_Mutation	SNP	C	C	T	rs61751507	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	202	105	189	0	0.519802	0	C|0.965;T|0.035	0.035	strong	.	CPN1	62	.	NM_001308	exon3	c.G533A	p.G178D	TTGGGGCCTCCGT	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388553	1388553	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	261	18	296	5	0.0689655	0.0168919	.	.	none	CRIPAK,NS,carcinoma,0,1	CRIPAK	185	1	NM_175918	exon1	c.A254G	p.H85R	GTGCCCACCTGCT	.	scavenged	Atlas-SNP
MTHFS	10588	hgsc.bcm.edu	37	15	80189277	80189277	+	Silent	SNP	C	C	T	rs375170671		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	19	15	46	0	0.789474	0	.	.	weak	.	MTHFS	11	.	NM_006441	exon1	c.G54A	p.K18K	ACGCTGCTTCAGC	.	PASS	Atlas-SNP
ASGR2	433	hgsc.bcm.edu	37	17	7012077	7012077	+	Silent	SNP	C	C	T	rs2304979	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	185	84	186	0	0.454054	0	C|0.777;T|0.223	0.223	strong	ASGR2,NS,carcinoma,-2,2	ASGR2	38	2	NM_080912	exon3	c.G255A	p.G85G	CTGGCCCCCGTGA	.	PASS	Atlas-SNP
MYO5C	55930	hgsc.bcm.edu	37	15	52534344	52534344	+	Silent	SNP	G	G	A	rs3751631	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	274	272	226	0	0.992701	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
CAND2	23066	hgsc.bcm.edu	37	3	12857493	12857493	+	Missense_Mutation	SNP	C	C	T	rs2305397	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	203	110	126	0	0.541872	0	C|0.612;T|0.386	0.386	strong	CAND2_ENST00000456430,caecum,carcinoma,0,2	CAND2	138	2	NM_001162499	exon9	c.C1427T	p.P476L	ATATGCCTGTGCT	.	PASS	Atlas-SNP
TNS1	7145	hgsc.bcm.edu	37	2	218695102	218695102	+	Missense_Mutation	SNP	G	G	A	rs3796028	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	78	40	55	0	0.512821	0	G|0.646;A|0.354	0.354	strong	.	TNS1	251	.	NM_022648	exon21	c.C3010T	p.R1004W	GGATCCGTCTTCT	.	PASS	Atlas-SNP
ZNF429	353088	hgsc.bcm.edu	37	19	21720803	21720803	+	Missense_Mutation	SNP	C	C	T	rs2562473	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	48	23	51	0	0.479167	0	C|0.842;T|0.158	0.158	strong	ZNF429,NS,carcinoma,-2,2	ZNF429	338	2	NM_001001415	exon4	c.C1948T	p.H650Y	GTGGCTCATGCCT	.	PASS	Atlas-SNP
FAM78A	286336	hgsc.bcm.edu	37	9	134136248	134136248	+	Silent	SNP	G	G	A	rs9966	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	115	114	162	0	0.991304	0	G|0.872;A|0.128	0.128	strong	.	FAM78A	28	.	NM_033387	exon2	c.C813T	p.Y271Y	CTGCCCGTACTTG	.	PASS	Atlas-SNP
DPM2	8818	hgsc.bcm.edu	37	9	130698043	130698043	+	Silent	SNP	A	A	G	rs6781	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	117	52	119	0	0.444444	0	A|0.231;G|0.769	0.769	strong	.	DPM2	6	.	NM_003863	exon4	c.T213C	p.Y71Y	CATCACATAGGAG	.	PASS	Atlas-SNP
SEMA6D	80031	hgsc.bcm.edu	37	15	48056958	48056958	+	Silent	SNP	C	C	T	rs3743281	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	42	116	0	0.403846	0	C|0.814;T|0.186	0.186	strong	.	SEMA6D	322	.	NM_153617	exon12	c.C1221T	p.A407A	CATTGCCGATGAG	.	PASS	Atlas-SNP
ALPK1	80216	hgsc.bcm.edu	37	4	113353052	113353052	+	Silent	SNP	C	C	T	rs17044681	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	24	52	0	0.571429	0	C|0.912;T|0.088	0.088	strong	.	ALPK1	125	.	NM_001102406	exon11	c.C2349T	p.S783S	TCCCTCCTGGGTT	.	PASS	Atlas-SNP
FGD4	121512	hgsc.bcm.edu	37	12	32764184	32764184	+	Silent	SNP	G	G	A	rs10844253	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	97	50	77	0	0.515464	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
SPTA1	6708	hgsc.bcm.edu	37	1	158584091	158584091	+	Missense_Mutation	SNP	A	A	G	rs952094	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	130	130	135	0	1	0	A|0.461;G|0.539	0.539	strong	.	SPTA1	720	.	NM_003126	exon49	c.T6794C	p.I2265T	CCTTTGATGTCCC	.	PASS	Atlas-SNP
ZDHHC8	29801	hgsc.bcm.edu	37	22	20131115	20131115	+	Silent	SNP	C	C	T	rs9605069	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	8	6	29	0	0.75	0	C|0.905;T|0.095	0.095	strong	.	ZDHHC8	77	.	NM_001185024	exon10	c.C1962T	p.N654N	CAGCAACGCCCCG	.	PASS	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	37	1	152187551	152187551	+	Missense_Mutation	SNP	C	C	T	rs200451128		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	501	7	247	5	0.0139721	0.0202429	.	.	weak	HRNR,colon,carcinoma,0,2	HRNR	403	2	NM_001009931	exon3	c.G6554A	p.R2185H	CGGCCGCGGCTAG	.	scavenged	Atlas-SNP
HMHA1	23526	hgsc.bcm.edu	37	19	1068734	1068734	+	Silent	SNP	T	T	C	rs3764653	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	201	73	194	0	0.363184	0	T|0.596;C|0.404	0.404	strong	.	HMHA1	78	.	NM_001258328	exon2	c.T460C	p.L154L	TGTGTGTTGCGTG	.	PASS	Atlas-SNP
CSPG4	1464	hgsc.bcm.edu	37	15	75981507	75981507	+	Silent	SNP	A	A	G	rs12900539	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	40	15	66	0	0.375	0	A|0.591;G|0.409	0.409	strong	.	CSPG4	175	.	NM_001897	exon3	c.T1899C	p.G633G	TGCAGGACCACCG	.	PASS	Atlas-SNP
TERT	7015	hgsc.bcm.edu	37	5	1254594	1254594	+	Missense_Mutation	SNP	C	C	T	rs35719940	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	93	48	77	0	0.516129	0	C|0.990;T|0.010	0.010	strong	.	TERT	2594	.	NM_198253	exon15	c.G3184A	p.A1062T	GGCCGGCGGCGCC	.	PASS	Atlas-SNP
OR14C36	127066	hgsc.bcm.edu	37	1	248512498	248512498	+	Missense_Mutation	SNP	A	A	G	rs28448343	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	84	188	0	0.456522	0	A|0.811;G|0.189	0.189	strong	OR14C36,rectum,carcinoma,+1,1	OR14C36	113	1	NM_001001918	exon1	c.A422G	p.Q141R	GCATCCAGATGAC	.	PASS	Atlas-SNP
NKD1	85407	hgsc.bcm.edu	37	16	50667299	50667299	+	Silent	SNP	C	C	T	rs34100051	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	285	133	276	1	0.466667	0.00362319	C|0.981;T|0.019	0.019	strong	.	NKD1	43	.	NM_033119	exon10	c.C1020T	p.D340D	CCAGGACGGGAGC	.	PASS	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50407502	50407502	+	Missense_Mutation	SNP	A	A	C	rs6126344	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	59	23	61	0	0.38983	0	A|0.697;C|0.303	0.303	strong	.	SALL4	168	.	NM_020436	exon2	c.T1520G	p.L507R	GGCTGCAGGTCAC	.	PASS	Atlas-SNP
PEX11A	8800	hgsc.bcm.edu	37	15	90226947	90226947	+	Silent	SNP	C	C	A	rs7169981	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	17	44	0	0.326923	0	C|0.398;A|0.602	0.602	strong	.	PEX11A	21	.	NM_003847	exon3	c.G405T	p.L135L	CCTGACCAGGCTC	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19184077	19184077	+	Silent	SNP	A	A	G	rs68081213	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	35	121	0	0.507246	0	A|0.684;G|0.316	0.316	strong	.	TAS1R2	134	.	NM_152232	exon2	c.T231C	p.F77F	CACCGCAAAGCGC	.	PASS	Atlas-SNP
ALCAM	214	hgsc.bcm.edu	37	3	105266331	105266331	+	Silent	SNP	A	A	G	rs9855810	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	239	114	226	0	0.476987	0	A|0.924;G|0.076	0.076	strong	.	ALCAM	71	.	NM_001627	exon11	c.A1338G	p.Q446Q	CATTCAATGGACA	.	PASS	Atlas-SNP
FAM83B	222584	hgsc.bcm.edu	37	6	54805889	54805889	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	109	2	78	0	0.0183486	0	.	.	none	FAM83B,rectum,carcinoma,0,1	FAM83B	186	1	NM_001010872	exon5	c.C2120T	p.S707F	AAAGTTCTAAAAG	.	scavenged	Atlas-SNP
SLIT3	6586	hgsc.bcm.edu	37	5	168233474	168233474	+	Silent	SNP	G	G	A	rs3797715	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	137	86	138	0	0.627737	0	G|0.859;A|0.141	0.141	strong	.	SLIT3	224	.	NM_001271946	exon9	c.C912T	p.N304N	CGGCAAGTTGGCA	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	37	2	128388790	128388790	+	Silent	SNP	G	G	A	rs13025791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	98	131	0	1	0	G|0.852;A|0.148	0.148	strong	MYO7B_ENST00000428314,NS,carcinoma,0,2	MYO7B	359	2	NM_001080527	exon36	c.G4869A	p.E1623E	TCCAGAGAAGGAC	.	PASS	Atlas-SNP
VWA5B2	90113	hgsc.bcm.edu	37	3	183953972	183953972	+	Silent	SNP	G	G	A	rs1709657	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	296	116	259	0	0.391892	0	G|0.823;A|0.177	0.177	strong	.	VWA5B2	47	.	NM_138345	exon8	c.G1134A	p.P378P	CCTCCCGCCCCAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515413	195515413	+	Missense_Mutation	SNP	C	C	T	rs55868431	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	184	40	598	68	0.217391	0.113712	C|0.963;T|0.037	0.037	strong	MUC4_ENST00000463781,NS,carcinoma,-1,2	MUC4	1505	2	NM_018406	exon2	c.G3038A	p.S1013N	GAAGGGCTGGTGA	.	scavenged	Atlas-SNP
DUSP16	80824	hgsc.bcm.edu	37	12	12630669	12630669	+	Missense_Mutation	SNP	C	C	T	rs3809199	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	104	63	97	0	0.605769	0	C|0.982;T|0.018	0.018	strong	.	DUSP16	64	.	NM_030640	exon7	c.G1096A	p.V366M	GCTGCACGCTGGG	.	PASS	Atlas-SNP
AGAP6	414189	hgsc.bcm.edu	37	10	51748684	51748684	+	Missense_Mutation	SNP	G	G	A	rs77235195		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	32	14	25	0	0.4375	0	A|1.000;|0.000	1.000	weak	AGAP6,NS,carcinoma,0,1	AGAP6	53	1	NM_001077665	exon1	c.G209A	p.R70Q	GTGACCGGGAGAT	.	PASS	Atlas-SNP
CECR1	51816	hgsc.bcm.edu	37	22	17690430	17690430	+	Silent	SNP	C	C	G	rs7289141	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	174	88	189	0	0.505747	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
RHPN2	85415	hgsc.bcm.edu	37	19	33517507	33517507	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	52	2	50	0	0.0384615	0	.	.	none	RHPN2,face,carcinoma,0,2	RHPN2	107	2	NM_033103	exon3	c.G217A	p.V73M	GCCGCACTTGCTC	.	scavenged	Atlas-SNP
WIPF3	644150	hgsc.bcm.edu	37	7	29923572	29923572	+	Silent	SNP	T	T	C	rs28439342	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	56	29	58	0	0.517857	0	T|0.850;C|0.150	0.150	strong	.	WIPF3	46	.	NM_001080529	exon5	c.T462C	p.N154N	AGGCAATACCTCC	.	PASS	Atlas-SNP
TMPO	7112	hgsc.bcm.edu	37	12	98927830	98927830	+	Missense_Mutation	SNP	C	C	G	rs17459334	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	114	64	81	0	0.561404	0	C|0.934;G|0.066	0.066	strong	TMPO_ENST00000266732,rectum,carcinoma,0,1	TMPO	111	1	NM_003276	exon4	c.C1795G	p.Q599E	ATTAGTCAAGCTG	.	PASS	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	37	2	228004877	228004877	+	Silent	SNP	C	C	T	novel		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	142	81	172	0	0.570423	0	.	.	none	COL4A4,NS,lymphoid_neoplasm,-1,2	COL4A4	215	2	NM_000092	exon4	c.G192A	p.R64R	ACTTACCCGAGAC	.	PASS	Atlas-SNP
DGCR14	8220	hgsc.bcm.edu	37	22	19122665	19122665	+	Silent	SNP	C	C	T	rs2240111	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	65	137	0	0.481481	0	C|0.835;A|0.001	.	strong	.	DGCR14	43	.	NM_022719	exon9	c.G1059A	p.E353E	CAGCCGCTCCCTG	.	PASS	Atlas-SNP
JAKMIP2	9832	hgsc.bcm.edu	37	5	147024509	147024509	+	Silent	SNP	C	C	T	rs2116765	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	205	132	185	0	0.643902	0	C|0.698;T|0.302	0.302	strong	.	JAKMIP2	154	.	NM_001270941	exon6	c.G987A	p.R329R	CTTGTTCCTTTCC	.	PASS	Atlas-SNP
EML6	400954	hgsc.bcm.edu	37	2	55186394	55186394	+	Silent	SNP	A	A	C	rs17346629	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	44	44	48	0	1	0	A|0.447;C|0.553	0.553	strong	.	EML6	85	.	NM_001039753	exon33	c.A4849C	p.R1617R	AAAGAGAGGCCGT	.	PASS	Atlas-SNP
HNRNPM	4670	hgsc.bcm.edu	37	19	8553630	8553630	+	Silent	SNP	C	C	T	rs6992	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	162	183	0	0.993865	0	C|0.122;T|0.878	0.878	strong	.	HNRNPM	61	.	NM_005968	exon16	c.C2085T	p.G695G	GTGTGGCGTGGTT	.	PASS	Atlas-SNP
UNC79	57578	hgsc.bcm.edu	37	14	93943998	93943998	+	Silent	SNP	G	G	A	rs61992606	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	199	108	153	0	0.542714	0	G|0.684;A|0.316	0.316	strong	.	UNC79	366	.	NM_020818	exon4	c.G12A	p.T4T	ATCAACGTTGGCT	.	PASS	Atlas-SNP
TPR	7175	hgsc.bcm.edu	37	1	186301447	186301447	+	Silent	SNP	T	T	C	rs7526540	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	92	40	77	0	0.434783	0	T|0.958;C|0.042	0.042	strong	.	TPR	441	.	NM_003292	exon38	c.A5484G	p.P1828P	ACGCTTTGGCAAA	.	PASS	Atlas-SNP
OR10H1	26539	hgsc.bcm.edu	37	19	15918177	15918177	+	Missense_Mutation	SNP	G	G	T	rs62619246	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	256	30	251	0	0.117188	0	G|0.944;T|0.056	0.056	strong	OR10H1,NS,carcinoma,0,3	OR10H1	59	3	NM_013940	exon1	c.C671A	p.A224D	ATGGCGGCCACGA	.	scavenged	Atlas-SNP
FAM120AOS	158293	hgsc.bcm.edu	37	9	96209943	96209943	+	Missense_Mutation	SNP	T	T	C	rs10821128	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	198	198	164	0	1	0	T|0.734;C|0.266	0.266	strong	.	FAM120AOS	13	.	NM_198841	exon3	c.A721G	p.K241E	TTTTCTTTGAGAC	.	PASS	Atlas-SNP
RFC1	5981	hgsc.bcm.edu	37	4	39302029	39302029	+	Silent	SNP	T	T	C	rs2066786	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	135	61	121	0	0.451852	0	T|0.557;C|0.443	0.443	strong	.	RFC1	114	.	NM_001204747	exon20	c.A2544G	p.P848P	ATCAAATGGGCCC	.	PASS	Atlas-SNP
U2AF2	11338	hgsc.bcm.edu	37	19	56181019	56181019	+	Silent	SNP	C	C	T	rs147666260	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	156	76	125	0	0.487179	0	C|0.994;T|0.006	0.006	strong	.	U2AF2	62	.	NM_007279	exon11	c.C1254T	p.P418P	GATCCCCCGGCCT	.	PASS	Atlas-SNP
CERS2	29956	hgsc.bcm.edu	37	1	150940625	150940625	+	Missense_Mutation	SNP	T	T	G	rs267738	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	74	29	74	0	0.391892	0	T|0.878;G|0.122	0.122	strong	LASS2,colon,carcinoma,0,1	.	.	1	NM_022075	exon4	c.A344C	p.E115A	CAACGCTCTACCT	.	PASS	Atlas-SNP
PDPR	55066	hgsc.bcm.edu	37	16	70182375	70182375	+	Silent	SNP	T	T	C	rs62050977	bycluster;byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	446	87	354	0	0.195067	0	T|0.715;C|0.286	0.286	strong	.	PDPR	66	.	NM_017990	exon17	c.T1971C	p.S657S	GATGAGTGTGGGC	.	PASS	Atlas-SNP
PPP1R15A	23645	hgsc.bcm.edu	37	19	49379182	49379182	+	Silent	SNP	G	G	C	rs527	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	139	65	147	0	0.467626	0	G|0.646;C|0.354	0.354	strong	.	PPP1R15A	48	.	NM_014330	exon3	c.G1977C	p.S659S	CCGCTCGTCTGCT	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385954	58385954	+	Silent	SNP	T	T	C	rs10412929	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	240	100	243	0	0.416667	0	T|0.664;C|0.336	0.336	strong	ZNF814,NS,carcinoma,0,1	ZNF814	93	1	NM_001144989	exon3	c.A804G	p.K268K	TTCATGTTTTTTT	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	37	15	42171655	42171655	+	Missense_Mutation	SNP	C	C	A	rs55637254	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	22	43	0	0.415094	0	C|0.973;A|0.027	0.027	strong	.	SPTBN5	171	.	NM_016642	exon16	c.G2880T	p.Q960H	TGCCAGCTGCACG	.	PASS	Atlas-SNP
COL4A3BP	10087	hgsc.bcm.edu	37	5	74681773	74681773	+	Silent	SNP	T	T	C	rs698912	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	95	41	88	0	0.431579	0	T|0.743;C|0.257	0.257	strong	COL4A3BP,NS,carcinoma,0,1	COL4A3BP	72	1	NM_001130105	exon14	c.A1755G	p.E585E	GCAGACTTCATGT	.	PASS	Atlas-SNP
BRDT	676	hgsc.bcm.edu	37	1	92428495	92428495	+	Missense_Mutation	SNP	C	C	A	rs10783071	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	99	99	113	1	1	0.00884956	C|0.189;A|0.811	0.811	strong	.	BRDT	133	.	NM_001242806	exon2	c.C184A	p.Q62K	AAACTACAGTTGC	.	PASS	Atlas-SNP
KNG1	3827	hgsc.bcm.edu	37	3	186443018	186443018	+	Missense_Mutation	SNP	T	T	C	rs1656922	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	163	95	133	0	0.582822	0	T|0.473;C|0.527	0.527	strong	KNG1_ENST00000265023,NS,carcinoma,0,2	KNG1	129	2	NM_000893	exon4	c.T533C	p.M178T	TCTTCATGCTTAA	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62194030	62194030	+	Missense_Mutation	SNP	G	G	C	rs3810483	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	144	72	149	0	0.5	0	G|0.544;C|0.456	0.456	strong	.	.	.	.	NM_001037335	exon9	c.C6145G	p.Q2049E	AGTCCTGCGTCTG	.	PASS	Atlas-SNP
CARS	833	hgsc.bcm.edu	37	11	3028140	3028140	+	Silent	SNP	G	G	A	rs729662	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	55	28	77	0	0.509091	0	G|0.727;A|0.273	0.273	strong	.	CARS	114	.	NM_001014437	exon19	c.C2118T	p.P706P	AAGCTCGGGCAGG	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	37	5	82833391	82833391	+	Silent	SNP	A	A	G	rs16900528	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	69	24	67	0	0.347826	0	A|0.942;G|0.058	0.058	strong	.	VCAN	498	.	NM_004385	exon8	c.A4569G	p.T1523T	AGTCACAGAGAGA	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954709	30954709	+	Missense_Mutation	SNP	G	G	A	rs11756238	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	219	11	187	7	0.0502283	0.0374332	G|0.989;A|0.011	0.011	strong	MUC21,colon,carcinoma,-1,2	MUC21	98	2	NM_001010909	exon2	c.G757A	p.G253S	GGGGCCGGCACAG	.	scavenged	Atlas-SNP
CNTLN	54875	hgsc.bcm.edu	37	9	17135115	17135115	+	Silent	SNP	C	C	T	rs41306071	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	42	23	82	0	0.547619	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
KARS	3735	hgsc.bcm.edu	37	16	75675609	75675609	+	Silent	SNP	T	T	C	rs5030748	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	98	49	78	0	0.5	0	T|0.933;C|0.067	0.067	strong	.	KARS	77	.	NM_001130089	exon3	c.A159G	p.R53R	CAGGCGTCTCTTC	.	PASS	Atlas-SNP
MMRN2	79812	hgsc.bcm.edu	37	10	88702390	88702390	+	Silent	SNP	G	G	A	rs10887673	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	13	9	21	0	0.692308	0	A|0.213;C|0.000;G|0.787	0.213	strong	.	MMRN2	49	.	NM_024756	exon6	c.C2151T	p.A717A	GGCCTCGGCCTCG	.	PASS	Atlas-SNP
BCLAF1	9774	hgsc.bcm.edu	37	6	136599912	136599912	+	Missense_Mutation	SNP	G	G	T	rs200334350		TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	20	2	29	1	0.1	0.0344828	.	.	weak	BCLAF1_ENST00000531224,head_neck,carcinoma,-1,1	BCLAF1	203	1	NM_014739	exon4	c.C107A	p.S36Y	GACCTAGAACTAA	.	scavenged	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	37	12	26733062	26733062	+	Silent	SNP	T	T	C	rs2230375	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	63	62	80	0	0.984127	0	T|0.774;C|0.226	0.226	strong	.	ITPR2	270	.	NM_002223	exon33	c.A4407G	p.K1469K	TGCATGTTTCCTG	.	PASS	Atlas-SNP
CEP68	23177	hgsc.bcm.edu	37	2	65296798	65296798	+	Missense_Mutation	SNP	G	G	A	rs7572857	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	76	40	86	1	0.526316	0.0116279	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	.	scavenged	Atlas-SNP
ADAM29	11086	hgsc.bcm.edu	37	4	175899079	175899079	+	Silent	SNP	C	C	T	rs151310201	byfrequency	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	204	64	140	0	0.313726	0	C|0.986;T|0.013	0.013	strong	ADAM29,NS,carcinoma,0,1	ADAM29	262	1	NM_001130703	exon4	c.C2403T	p.P801P	GACACCCTCCCAG	.	PASS	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	37	11	120998942	120998942	+	Silent	SNP	C	C	T	rs10502247	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	41	17	26	0	0.414634	0	C|0.668;T|0.332	0.332	strong	.	TECTA	329	.	NM_005422	exon8	c.C2256T	p.I752I	GGAAATCGACATC	.	PASS	Atlas-SNP
C9orf96	169436	hgsc.bcm.edu	37	9	136268952	136268952	+	Missense_Mutation	SNP	G	G	T	rs33919837	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	53	33	62	0	0.622642	0	G|0.944;T|0.056	0.056	strong	.	C9orf96	77	.	NM_153710	exon15	c.G1603T	p.G535C	CTGCTGGGTGAGC	.	PASS	Atlas-SNP
FRMD1	79981	hgsc.bcm.edu	37	6	168464402	168464402	+	Missense_Mutation	SNP	C	C	T	rs73028318	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	194	72	196	1	0.371134	0.00510204	C|0.995;T|0.005	0.005	strong	FRMD1,colon,carcinoma,-1,2	FRMD1	52	2	NM_024919	exon6	c.G683A	p.R228Q	ATGTGCCGGAGGA	.	scavenged	Atlas-SNP
RXRG	6258	hgsc.bcm.edu	37	1	165389129	165389129	+	Silent	SNP	G	G	A	rs1128977	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	107	43	127	0	0.401869	0	G|0.737;A|0.263	0.263	strong	.	RXRG	91	.	NM_006917	exon3	c.C420T	p.A140A	ACAGATGGCACAG	.	PASS	Atlas-SNP
ESRP1	54845	hgsc.bcm.edu	37	8	95655596	95655596	+	Silent	SNP	T	T	C	rs72676907	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	186	79	190	0	0.424731	0	T|0.887;C|0.113	0.113	strong	.	ESRP1	148	.	NM_001122827	exon3	c.T327C	p.D109D	TACTGATGGGCAG	.	PASS	Atlas-SNP
GLB1	2720	hgsc.bcm.edu	37	3	33055688	33055688	+	Missense_Mutation	SNP	T	T	C	rs73826339	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	209	65	271	0	0.311005	0	A|0.000;C|0.056;T|0.944	0.056	strong	.	GLB1	51	.	NM_000404	exon15	c.A1594G	p.S532G	GGCCACTGTCACG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9076163	9076163	+	Silent	SNP	C	C	T	rs2547073	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	228	108	211	0	0.473684	0	C|0.745;T|0.255	0.255	strong	.	MUC16	4315	.	NM_024690	exon3	c.G11283A	p.Q3761Q	GAGTTCCTGGGGA	.	PASS	Atlas-SNP
GPR125	166647	hgsc.bcm.edu	37	4	22439914	22439914	+	Silent	SNP	A	A	C	rs6823735	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	268	143	218	0	0.533582	0	A|0.388;C|0.612	0.612	strong	GPR125,colon,carcinoma,-1,2	GPR125	118	2	NM_145290	exon8	c.T1050G	p.P350P	CTCTGGAGGACAG	.	PASS	Atlas-SNP
PCDHB7	56129	hgsc.bcm.edu	37	5	140554481	140554481	+	Missense_Mutation	SNP	G	G	T	rs1811237	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	159	60	177	0	0.377358	0	G|0.758;T|0.242	0.242	strong	PCDHB7,NS,carcinoma,0,1	PCDHB7	231	1	NM_018940	exon1	c.G2065T	p.V689L	TACCTGGTGGTGG	.	PASS	Atlas-SNP
PIK3C2B	5287	hgsc.bcm.edu	37	1	204399064	204399064	+	Silent	SNP	G	G	A	rs2271420	bycluster;byfrequency;by1000genomes	TCGA-G8-6325-01A-11D-2210-10	TCGA-G8-6325-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	05e026f4-b51f-45b2-97a0-1ac81c953a07	3cfafc88-7fc2-4fe8-8f68-4787a2a933c6	54	15	42	0	0.277778	0	G|0.866;A|0.134	0.134	strong	.	PIK3C2B	142	.	NM_002646	exon30	c.C4383T	p.P1461P	CTCAGGGGGTGCG	.	PASS	Atlas-SNP
